-- dump date 20120504_135853 -- class Genbank::misc_feature -- table misc_feature_note -- id note 406425000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 406425000002 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 406425000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425000004 Walker A motif; other site 406425000005 ATP binding site [chemical binding]; other site 406425000006 Walker B motif; other site 406425000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425000008 arginine finger; other site 406425000009 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 406425000010 DnaA box-binding interface [nucleotide binding]; other site 406425000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 406425000012 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 406425000013 putative DNA binding surface [nucleotide binding]; other site 406425000014 dimer interface [polypeptide binding]; other site 406425000015 beta-clamp/clamp loader binding surface; other site 406425000016 beta-clamp/translesion DNA polymerase binding surface; other site 406425000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 406425000018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000019 ATP binding site [chemical binding]; other site 406425000020 Mg2+ binding site [ion binding]; other site 406425000021 G-X-G motif; other site 406425000022 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 406425000023 anchoring element; other site 406425000024 dimer interface [polypeptide binding]; other site 406425000025 ATP binding site [chemical binding]; other site 406425000026 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 406425000027 active site 406425000028 putative metal-binding site [ion binding]; other site 406425000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 406425000030 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 406425000031 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425000032 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 406425000033 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425000034 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 406425000035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000036 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425000037 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425000038 DNA binding residues [nucleotide binding] 406425000039 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 406425000040 Z1 domain; Region: Z1; pfam10593 406425000041 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 406425000042 AIPR protein; Region: AIPR; pfam10592 406425000043 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 406425000044 additional DNA contacts [nucleotide binding]; other site 406425000045 mismatch recognition site; other site 406425000046 active site 406425000047 zinc binding site [ion binding]; other site 406425000048 DNA intercalation site [nucleotide binding]; other site 406425000049 Restriction endonuclease; Region: Mrr_cat; cl00516 406425000050 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 406425000051 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425000052 cofactor binding site; other site 406425000053 DNA binding site [nucleotide binding] 406425000054 substrate interaction site [chemical binding]; other site 406425000055 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425000056 non-specific DNA binding site [nucleotide binding]; other site 406425000057 salt bridge; other site 406425000058 sequence-specific DNA binding site [nucleotide binding]; other site 406425000059 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 406425000060 Integrase core domain; Region: rve; cl01316 406425000061 Integrase core domain; Region: rve_3; cl15866 406425000062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425000063 AAA domain; Region: AAA_22; pfam13401 406425000064 TniQ; Region: TniQ; pfam06527 406425000065 TniQ; Region: TniQ; pfam06527 406425000066 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 406425000067 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425000068 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 406425000069 putative active site [active] 406425000070 putative metal binding site [ion binding]; other site 406425000071 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 406425000072 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 406425000073 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 406425000074 ParB-like nuclease domain; Region: ParBc; cl02129 406425000075 ParB-like partition proteins; Region: parB_part; TIGR00180 406425000076 RepB plasmid partitioning protein; Region: RepB; pfam07506 406425000077 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 406425000078 ParB-like nuclease domain; Region: ParBc; cl02129 406425000079 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 406425000080 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 406425000081 catalytic residues [active] 406425000082 catalytic nucleophile [active] 406425000083 Recombinase; Region: Recombinase; pfam07508 406425000084 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 406425000085 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 406425000086 putative heme binding pocket [chemical binding]; other site 406425000087 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000088 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425000089 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 406425000090 Ribosomal protein S5 [Translation, ribosomal structure and biogenesis]; Region: RpsE; COG0098 406425000091 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 406425000092 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 406425000093 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000094 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425000095 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425000096 TIGR03440 family protein; Region: unchr_TIGR03440 406425000097 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 406425000098 probable methyltransferase; Region: TIGR03438 406425000099 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 406425000100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425000101 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425000102 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425000103 Restriction endonuclease [Defense mechanisms]; Region: COG3587 406425000104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425000105 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 406425000106 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425000107 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425000108 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425000109 trimer interface [polypeptide binding]; other site 406425000110 eyelet of channel; other site 406425000111 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 406425000112 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000113 active site 406425000114 phosphorylation site [posttranslational modification] 406425000115 intermolecular recognition site; other site 406425000116 dimerization interface [polypeptide binding]; other site 406425000117 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425000118 DNA binding site [nucleotide binding] 406425000119 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425000120 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425000121 dimer interface [polypeptide binding]; other site 406425000122 phosphorylation site [posttranslational modification] 406425000123 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000124 ATP binding site [chemical binding]; other site 406425000125 Mg2+ binding site [ion binding]; other site 406425000126 G-X-G motif; other site 406425000127 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425000128 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425000129 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425000130 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425000131 Walker A/P-loop; other site 406425000132 ATP binding site [chemical binding]; other site 406425000133 Q-loop/lid; other site 406425000134 ABC transporter signature motif; other site 406425000135 Walker B; other site 406425000136 D-loop; other site 406425000137 H-loop/switch region; other site 406425000138 NMT1-like family; Region: NMT1_2; cl15260 406425000139 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 406425000140 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 406425000141 FliP family; Region: FliP; cl00593 406425000142 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 406425000143 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425000144 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 406425000145 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425000146 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 406425000147 LrgB-like family; Region: LrgB; cl00596 406425000148 LrgA family; Region: LrgA; cl00608 406425000149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000150 Helix-turn-helix domains; Region: HTH; cl00088 406425000151 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 406425000152 putative dimerization interface [polypeptide binding]; other site 406425000153 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 406425000154 putative active site [active] 406425000155 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425000156 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425000157 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000158 putative substrate translocation pore; other site 406425000159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000160 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425000161 Helix-turn-helix domains; Region: HTH; cl00088 406425000162 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425000163 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 406425000164 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 406425000165 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 406425000166 GspL periplasmic domain; Region: GspL_C; cl14909 406425000167 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 406425000168 type II secretion system protein I; Region: gspI; TIGR01707 406425000169 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 406425000170 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 406425000171 Type II transport protein GspH; Region: GspH; pfam12019 406425000172 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 406425000173 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 406425000174 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 406425000175 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 406425000176 type II secretion system protein F; Region: GspF; TIGR02120 406425000177 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425000178 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425000179 type II secretion system protein E; Region: type_II_gspE; TIGR02533 406425000180 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 406425000181 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 406425000182 Walker A motif; other site 406425000183 ATP binding site [chemical binding]; other site 406425000184 Walker B motif; other site 406425000185 type II secretion system protein D; Region: type_II_gspD; TIGR02517 406425000186 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425000187 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425000188 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425000189 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 406425000190 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425000191 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425000192 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425000193 catalytic residue [active] 406425000194 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 406425000195 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425000196 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 406425000197 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 406425000198 IHF dimer interface [polypeptide binding]; other site 406425000199 IHF - DNA interface [nucleotide binding]; other site 406425000200 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 406425000201 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425000202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425000203 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 406425000204 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 406425000205 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 406425000206 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425000207 Helix-turn-helix domains; Region: HTH; cl00088 406425000208 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 406425000209 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 406425000210 catalytic triad [active] 406425000211 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 406425000212 active site 406425000213 FMN binding site [chemical binding]; other site 406425000214 substrate binding site [chemical binding]; other site 406425000215 homotetramer interface [polypeptide binding]; other site 406425000216 catalytic residue [active] 406425000217 SET domain; Region: SET; cl02566 406425000218 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425000219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425000220 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425000221 dimer interface [polypeptide binding]; other site 406425000222 phosphorylation site [posttranslational modification] 406425000223 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000224 ATP binding site [chemical binding]; other site 406425000225 Mg2+ binding site [ion binding]; other site 406425000226 G-X-G motif; other site 406425000227 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 406425000228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000229 active site 406425000230 phosphorylation site [posttranslational modification] 406425000231 intermolecular recognition site; other site 406425000232 dimerization interface [polypeptide binding]; other site 406425000233 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425000234 DNA binding site [nucleotide binding] 406425000235 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 406425000236 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 406425000237 aromatic arch; other site 406425000238 DCoH dimer interaction site [polypeptide binding]; other site 406425000239 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 406425000240 DCoH tetramer interaction site [polypeptide binding]; other site 406425000241 substrate binding site [chemical binding]; other site 406425000242 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 406425000243 cofactor binding site; other site 406425000244 metal binding site [ion binding]; metal-binding site 406425000245 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425000246 Helix-turn-helix domains; Region: HTH; cl00088 406425000247 AsnC family; Region: AsnC_trans_reg; pfam01037 406425000248 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 406425000249 putative active site [active] 406425000250 putative metal binding residues [ion binding]; other site 406425000251 signature motif; other site 406425000252 putative triphosphate binding site [ion binding]; other site 406425000253 dimer interface [polypeptide binding]; other site 406425000254 Helix-turn-helix domains; Region: HTH; cl00088 406425000255 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425000256 dimerization interface [polypeptide binding]; other site 406425000257 choline dehydrogenase; Validated; Region: PRK02106 406425000258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425000259 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425000260 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425000261 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425000262 Walker A/P-loop; other site 406425000263 ATP binding site [chemical binding]; other site 406425000264 Q-loop/lid; other site 406425000265 ABC transporter signature motif; other site 406425000266 Walker B; other site 406425000267 D-loop; other site 406425000268 H-loop/switch region; other site 406425000269 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425000270 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425000271 Walker A/P-loop; other site 406425000272 ATP binding site [chemical binding]; other site 406425000273 Q-loop/lid; other site 406425000274 ABC transporter signature motif; other site 406425000275 Walker B; other site 406425000276 D-loop; other site 406425000277 H-loop/switch region; other site 406425000278 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425000279 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 406425000280 putative ligand binding site [chemical binding]; other site 406425000281 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425000282 TM-ABC transporter signature motif; other site 406425000283 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425000284 TM-ABC transporter signature motif; other site 406425000285 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425000286 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 406425000287 putative ligand binding site [chemical binding]; other site 406425000288 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425000289 TM-ABC transporter signature motif; other site 406425000290 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425000291 TM-ABC transporter signature motif; other site 406425000292 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425000293 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425000294 Walker A/P-loop; other site 406425000295 ATP binding site [chemical binding]; other site 406425000296 Q-loop/lid; other site 406425000297 ABC transporter signature motif; other site 406425000298 Walker B; other site 406425000299 D-loop; other site 406425000300 H-loop/switch region; other site 406425000301 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425000302 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425000303 Walker A/P-loop; other site 406425000304 ATP binding site [chemical binding]; other site 406425000305 Q-loop/lid; other site 406425000306 ABC transporter signature motif; other site 406425000307 Walker B; other site 406425000308 D-loop; other site 406425000309 H-loop/switch region; other site 406425000310 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 406425000311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425000312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425000313 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 406425000314 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425000315 S-adenosylmethionine binding site [chemical binding]; other site 406425000316 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 406425000317 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425000318 P-loop; other site 406425000319 Magnesium ion binding site [ion binding]; other site 406425000320 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425000321 Magnesium ion binding site [ion binding]; other site 406425000322 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 406425000323 ParB-like nuclease domain; Region: ParBc; cl02129 406425000324 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 406425000325 transmembrane helices; other site 406425000326 ATP synthase I chain; Region: ATP_synt_I; cl09170 406425000327 ATP synthase A chain; Region: ATP-synt_A; cl00413 406425000328 ATP synthase subunit C; Region: ATP-synt_C; cl00466 406425000329 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 406425000330 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 406425000331 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 406425000332 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 406425000333 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 406425000334 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 406425000335 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 406425000336 beta subunit interaction interface [polypeptide binding]; other site 406425000337 Walker A motif; other site 406425000338 ATP binding site [chemical binding]; other site 406425000339 Walker B motif; other site 406425000340 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 406425000341 ATP synthase; Region: ATP-synt; cl00365 406425000342 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 406425000343 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 406425000344 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 406425000345 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 406425000346 alpha subunit interaction interface [polypeptide binding]; other site 406425000347 Walker A motif; other site 406425000348 ATP binding site [chemical binding]; other site 406425000349 Walker B motif; other site 406425000350 inhibitor binding site; inhibition site 406425000351 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 406425000352 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 406425000353 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 406425000354 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 406425000355 AMP-binding domain protein; Validated; Region: PRK08315 406425000356 AMP-binding enzyme; Region: AMP-binding; cl15778 406425000357 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425000358 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425000359 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425000360 substrate binding pocket [chemical binding]; other site 406425000361 membrane-bound complex binding site; other site 406425000362 hinge residues; other site 406425000363 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 406425000364 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 406425000365 substrate binding site [chemical binding]; other site 406425000366 active site 406425000367 primosome assembly protein PriA; Validated; Region: PRK05580 406425000368 primosome assembly protein PriA; Validated; Region: PRK05580 406425000369 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425000370 ATP binding site [chemical binding]; other site 406425000371 putative Mg++ binding site [ion binding]; other site 406425000372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425000373 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 406425000374 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 406425000375 Proline dehydrogenase; Region: Pro_dh; cl03282 406425000376 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 406425000377 Glutamate binding site [chemical binding]; other site 406425000378 NAD binding site [chemical binding]; other site 406425000379 catalytic residues [active] 406425000380 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425000381 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425000382 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425000383 dimerization interface [polypeptide binding]; other site 406425000384 ligand binding site [chemical binding]; other site 406425000385 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425000386 AMP-binding enzyme; Region: AMP-binding; cl15778 406425000387 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425000388 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425000389 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425000390 active site 406425000391 Helix-turn-helix domains; Region: HTH; cl00088 406425000392 transcriptional regulator BetI; Validated; Region: PRK00767 406425000393 putative aminotransferase; Provisional; Region: PRK12414 406425000394 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425000395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425000396 homodimer interface [polypeptide binding]; other site 406425000397 catalytic residue [active] 406425000398 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 406425000399 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425000400 substrate binding pocket [chemical binding]; other site 406425000401 membrane-bound complex binding site; other site 406425000402 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425000403 FAD binding domain; Region: FAD_binding_4; pfam01565 406425000404 Helix-turn-helix domains; Region: HTH; cl00088 406425000405 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 406425000406 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 406425000407 DNA binding residues [nucleotide binding] 406425000408 dimer interface [polypeptide binding]; other site 406425000409 putative metal binding site [ion binding]; other site 406425000410 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 406425000411 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 406425000412 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425000413 Double zinc ribbon; Region: DZR; pfam12773 406425000414 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425000415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425000416 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 406425000417 Conserved TM helix; Region: TM_helix; pfam05552 406425000418 Spore germination protein; Region: Spore_permease; cl15802 406425000419 ethanolamine permease; Region: 2A0305; TIGR00908 406425000420 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 406425000421 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 406425000422 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 406425000423 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000424 Helix-turn-helix domains; Region: HTH; cl00088 406425000425 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 406425000426 putative effector binding pocket; other site 406425000427 putative dimerization interface [polypeptide binding]; other site 406425000428 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425000429 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000430 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425000431 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 406425000432 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425000433 NAD(P) binding site [chemical binding]; other site 406425000434 catalytic residues [active] 406425000435 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425000436 transcriptional regulator EutR; Provisional; Region: PRK10130 406425000437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425000438 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425000439 thiamine pyrophosphate protein; Validated; Region: PRK08199 406425000440 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425000441 PYR/PP interface [polypeptide binding]; other site 406425000442 dimer interface [polypeptide binding]; other site 406425000443 TPP binding site [chemical binding]; other site 406425000444 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425000445 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 406425000446 TPP-binding site [chemical binding]; other site 406425000447 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 406425000448 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425000449 oligomeric interface; other site 406425000450 putative active site [active] 406425000451 homodimer interface [polypeptide binding]; other site 406425000452 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 406425000453 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 406425000454 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 406425000455 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 406425000456 glycine dehydrogenase; Provisional; Region: PRK05367 406425000457 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425000458 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425000459 catalytic residue [active] 406425000460 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 406425000461 tetramer interface [polypeptide binding]; other site 406425000462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425000463 catalytic residue [active] 406425000464 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 406425000465 lipoyl attachment site [posttranslational modification]; other site 406425000466 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 406425000467 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 406425000468 putative oxidoreductase; Provisional; Region: PRK11579 406425000469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425000470 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 406425000471 active site 406425000472 catalytic triad [active] 406425000473 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 406425000474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425000475 Family description; Region: UvrD_C_2; cl15862 406425000476 Cytochrome c; Region: Cytochrom_C; cl11414 406425000477 Cytochrome c; Region: Cytochrom_C; cl11414 406425000478 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 406425000479 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425000480 active site 406425000481 DNA binding site [nucleotide binding] 406425000482 Int/Topo IB signature motif; other site 406425000483 DNA primase domain-containing protein; Region: PHA02415 406425000484 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 406425000485 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 406425000486 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425000487 Helix-turn-helix domains; Region: HTH; cl00088 406425000488 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425000489 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 406425000490 Phage-related tail protein [Function unknown]; Region: COG5283 406425000491 Phage-related minor tail protein [Function unknown]; Region: COG5280 406425000492 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 406425000493 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 406425000494 Phage tail tube protein FII; Region: Phage_tube; cl01390 406425000495 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 406425000496 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425000497 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 406425000498 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 406425000499 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 406425000500 Baseplate J-like protein; Region: Baseplate_J; cl01294 406425000501 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 406425000502 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 406425000503 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425000504 AIPR protein; Region: AIPR; pfam10592 406425000505 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 406425000506 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 406425000507 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 406425000508 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 406425000509 Protein of unknown function (DUF754); Region: DUF754; pfam05449 406425000510 Phage Tail Protein X; Region: Phage_tail_X; cl02088 406425000511 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 406425000512 terminase endonuclease subunit; Provisional; Region: M; PHA02537 406425000513 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 406425000514 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 406425000515 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 406425000516 terminase ATPase subunit; Provisional; Region: P; PHA02535 406425000517 Helix-turn-helix domains; Region: HTH; cl00088 406425000518 Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may...; Region: SynN; cl00143 406425000519 nSec1 interaction sites; other site 406425000520 interdomain interaction site; other site 406425000521 linker region; other site 406425000522 Phage-related protein [Function unknown]; Region: COG4695; cl01923 406425000523 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 406425000524 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 406425000525 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 406425000526 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 406425000527 PAAR motif; Region: PAAR_motif; cl15808 406425000528 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 406425000529 synthetase active site [active] 406425000530 NTP binding site [chemical binding]; other site 406425000531 metal binding site [ion binding]; metal-binding site 406425000532 Uncharacterized conserved protein [Function unknown]; Region: COG4278 406425000533 TIGR04222 domain; Region: near_uncomplex 406425000534 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 406425000535 trimer interface [polypeptide binding]; other site 406425000536 active site 406425000537 substrate binding site [chemical binding]; other site 406425000538 CoA binding site [chemical binding]; other site 406425000539 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425000540 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000541 binding surface 406425000542 TPR motif; other site 406425000543 Tetratricopeptide repeat; Region: TPR_12; pfam13424 406425000544 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000545 binding surface 406425000546 TPR motif; other site 406425000547 TPR repeat; Region: TPR_11; pfam13414 406425000548 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000549 binding surface 406425000550 TPR motif; other site 406425000551 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425000552 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425000553 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 406425000554 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 406425000555 putative trimer interface [polypeptide binding]; other site 406425000556 putative CoA binding site [chemical binding]; other site 406425000557 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 406425000558 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 406425000559 inhibitor-cofactor binding pocket; inhibition site 406425000560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425000561 catalytic residue [active] 406425000562 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425000563 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000564 TPR motif; other site 406425000565 binding surface 406425000566 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000567 binding surface 406425000568 TPR motif; other site 406425000569 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 406425000570 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425000571 TPR motif; other site 406425000572 binding surface 406425000573 flagellar capping protein; Reviewed; Region: fliD; PRK08032 406425000574 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 406425000575 flagellin; Reviewed; Region: PRK08869 406425000576 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425000577 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 406425000578 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 406425000579 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425000580 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425000581 N-terminal plug; other site 406425000582 ligand-binding site [chemical binding]; other site 406425000583 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 406425000584 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 406425000585 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 406425000586 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 406425000587 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 406425000588 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 406425000589 putative hydrolase; Provisional; Region: PRK10976 406425000590 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425000591 active site 406425000592 motif I; other site 406425000593 motif II; other site 406425000594 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425000595 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 406425000596 amphipathic channel; other site 406425000597 Asn-Pro-Ala signature motifs; other site 406425000598 H-NS histone family; Region: Histone_HNS; pfam00816 406425000599 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 406425000600 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425000601 putative ADP-binding pocket [chemical binding]; other site 406425000602 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 406425000603 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 406425000604 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 406425000605 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425000606 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 406425000607 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 406425000608 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425000609 ligand binding site [chemical binding]; other site 406425000610 Response regulator receiver domain; Region: Response_reg; pfam00072 406425000611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000612 active site 406425000613 phosphorylation site [posttranslational modification] 406425000614 intermolecular recognition site; other site 406425000615 dimerization interface [polypeptide binding]; other site 406425000616 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 406425000617 putative binding surface; other site 406425000618 active site 406425000619 CheY binding; Region: CheY-binding; pfam09078 406425000620 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 406425000621 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425000622 ATP binding site [chemical binding]; other site 406425000623 Mg2+ binding site [ion binding]; other site 406425000624 G-X-G motif; other site 406425000625 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 406425000626 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 406425000627 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425000628 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425000629 dimer interface [polypeptide binding]; other site 406425000630 ligand binding site [chemical binding]; other site 406425000631 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425000632 dimerization interface [polypeptide binding]; other site 406425000633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425000634 dimer interface [polypeptide binding]; other site 406425000635 putative CheW interface [polypeptide binding]; other site 406425000636 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 406425000637 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 406425000638 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425000639 CheD chemotactic sensory transduction; Region: CheD; cl00810 406425000640 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 406425000641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000642 active site 406425000643 phosphorylation site [posttranslational modification] 406425000644 intermolecular recognition site; other site 406425000645 dimerization interface [polypeptide binding]; other site 406425000646 CheB methylesterase; Region: CheB_methylest; pfam01339 406425000647 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 406425000648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425000649 active site 406425000650 phosphorylation site [posttranslational modification] 406425000651 intermolecular recognition site; other site 406425000652 dimerization interface [polypeptide binding]; other site 406425000653 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 406425000654 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 406425000655 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 406425000656 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 406425000657 dimer interface [polypeptide binding]; other site 406425000658 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 406425000659 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 406425000660 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 406425000661 FHIPEP family; Region: FHIPEP; pfam00771 406425000662 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 406425000663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425000664 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 406425000665 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 406425000666 P-loop; other site 406425000667 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 406425000668 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425000669 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425000670 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425000671 DNA binding residues [nucleotide binding] 406425000672 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 406425000673 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 406425000674 oligomerization interface [polypeptide binding]; other site 406425000675 active site 406425000676 NAD+ binding site [chemical binding]; other site 406425000677 Membrane protein of unknown function; Region: DUF360; cl00850 406425000678 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 406425000679 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 406425000680 FAD binding site [chemical binding]; other site 406425000681 amidase; Provisional; Region: PRK07869 406425000682 Amidase; Region: Amidase; cl11426 406425000683 Dienelactone hydrolase family; Region: DLH; pfam01738 406425000684 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425000685 FMN binding site [chemical binding]; other site 406425000686 substrate binding site [chemical binding]; other site 406425000687 putative catalytic residue [active] 406425000688 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425000689 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425000690 dimerization interface [polypeptide binding]; other site 406425000691 ligand binding site [chemical binding]; other site 406425000692 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425000693 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 406425000694 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 406425000695 H-NS histone family; Region: Histone_HNS; pfam00816 406425000696 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425000697 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 406425000698 Cation efflux family; Region: Cation_efflux; cl00316 406425000699 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425000700 Helix-turn-helix domains; Region: HTH; cl00088 406425000701 AsnC family; Region: AsnC_trans_reg; pfam01037 406425000702 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 406425000703 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425000704 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 406425000705 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425000706 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425000707 putative active site [active] 406425000708 putative NTP binding site [chemical binding]; other site 406425000709 putative nucleic acid binding site [nucleotide binding]; other site 406425000710 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425000711 Predicted methyltransferases [General function prediction only]; Region: COG0313 406425000712 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425000713 Restriction endonuclease; Region: Mrr_cat; cl00516 406425000714 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 406425000715 active site 406425000716 dimer interface [polypeptide binding]; other site 406425000717 outer membrane lipoprotein; Provisional; Region: PRK11023 406425000718 BON domain; Region: BON; cl02771 406425000719 BON domain; Region: BON; cl02771 406425000720 Cytochrome c; Region: Cytochrom_C; cl11414 406425000721 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 406425000722 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 406425000723 active site 406425000724 tetramer interface [polypeptide binding]; other site 406425000725 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425000726 D-galactonate transporter; Region: 2A0114; TIGR00893 406425000727 putative substrate translocation pore; other site 406425000728 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425000729 Helix-turn-helix domains; Region: HTH; cl00088 406425000730 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425000731 putative effector binding pocket; other site 406425000732 dimerization interface [polypeptide binding]; other site 406425000733 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425000734 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 406425000735 C-terminal domain interface [polypeptide binding]; other site 406425000736 GSH binding site (G-site) [chemical binding]; other site 406425000737 dimer interface [polypeptide binding]; other site 406425000738 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 406425000739 N-terminal domain interface [polypeptide binding]; other site 406425000740 dimer interface [polypeptide binding]; other site 406425000741 substrate binding pocket (H-site) [chemical binding]; other site 406425000742 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 406425000743 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 406425000744 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 406425000745 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 406425000746 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425000747 FtsX-like permease family; Region: FtsX; cl15850 406425000748 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425000749 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 406425000750 Walker A/P-loop; other site 406425000751 ATP binding site [chemical binding]; other site 406425000752 Q-loop/lid; other site 406425000753 ABC transporter signature motif; other site 406425000754 Walker B; other site 406425000755 D-loop; other site 406425000756 H-loop/switch region; other site 406425000757 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425000758 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425000759 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425000760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425000761 LysE type translocator; Region: LysE; cl00565 406425000762 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425000763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425000764 Helix-turn-helix domains; Region: HTH; cl00088 406425000765 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425000766 dimerization interface [polypeptide binding]; other site 406425000767 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425000768 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425000769 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425000770 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 406425000771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425000772 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425000773 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 406425000774 substrate binding site [chemical binding]; other site 406425000775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425000776 active site 406425000777 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 406425000778 Malic enzyme, N-terminal domain; Region: malic; pfam00390 406425000779 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 406425000780 putative NAD(P) binding site [chemical binding]; other site 406425000781 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 406425000782 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 406425000783 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 406425000784 dimer interface [polypeptide binding]; other site 406425000785 PYR/PP interface [polypeptide binding]; other site 406425000786 TPP binding site [chemical binding]; other site 406425000787 substrate binding site [chemical binding]; other site 406425000788 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 406425000789 TPP-binding site; other site 406425000790 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 406425000791 Sfi1 spindle body protein; Region: Sfi1; pfam08457 406425000792 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 406425000793 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 406425000794 dimer interface [polypeptide binding]; other site 406425000795 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 406425000796 active site 406425000797 Fe binding site [ion binding]; other site 406425000798 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425000799 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425000800 putative DNA binding site [nucleotide binding]; other site 406425000801 putative Zn2+ binding site [ion binding]; other site 406425000802 AsnC family; Region: AsnC_trans_reg; pfam01037 406425000803 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425000804 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425000805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425000806 Helix-turn-helix domains; Region: HTH; cl00088 406425000807 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 406425000808 Protein of unknown function; Region: DUF3658; pfam12395 406425000809 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 406425000810 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 406425000811 FAD binding pocket [chemical binding]; other site 406425000812 FAD binding motif [chemical binding]; other site 406425000813 phosphate binding motif [ion binding]; other site 406425000814 beta-alpha-beta structure motif; other site 406425000815 NAD(p) ribose binding residues [chemical binding]; other site 406425000816 NAD binding pocket [chemical binding]; other site 406425000817 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 406425000818 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425000819 catalytic loop [active] 406425000820 iron binding site [ion binding]; other site 406425000821 Domain of unknown function DUF59; Region: DUF59; cl00941 406425000822 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 406425000823 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 406425000824 Phenylacetic acid degradation B; Region: PaaB; cl01371 406425000825 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 406425000826 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 406425000827 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 406425000828 active site 406425000829 catalytic triad [active] 406425000830 oxyanion hole [active] 406425000831 elongation factor Tu; Reviewed; Region: PRK00049 406425000832 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 406425000833 G1 box; other site 406425000834 GEF interaction site [polypeptide binding]; other site 406425000835 GTP/Mg2+ binding site [chemical binding]; other site 406425000836 Switch I region; other site 406425000837 G2 box; other site 406425000838 G3 box; other site 406425000839 Switch II region; other site 406425000840 G4 box; other site 406425000841 G5 box; other site 406425000842 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 406425000843 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 406425000844 Antibiotic Binding Site [chemical binding]; other site 406425000845 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 406425000846 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 406425000847 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 406425000848 putative homodimer interface [polypeptide binding]; other site 406425000849 KOW motif; Region: KOW; cl00354 406425000850 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 406425000851 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 406425000852 23S rRNA interface [nucleotide binding]; other site 406425000853 L7/L12 interface [polypeptide binding]; other site 406425000854 putative thiostrepton binding site; other site 406425000855 L25 interface [polypeptide binding]; other site 406425000856 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 406425000857 mRNA/rRNA interface [nucleotide binding]; other site 406425000858 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 406425000859 23S rRNA interface [nucleotide binding]; other site 406425000860 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 406425000861 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 406425000862 peripheral dimer interface [polypeptide binding]; other site 406425000863 core dimer interface [polypeptide binding]; other site 406425000864 L10 interface [polypeptide binding]; other site 406425000865 L11 interface [polypeptide binding]; other site 406425000866 putative EF-Tu interaction site [polypeptide binding]; other site 406425000867 putative EF-G interaction site [polypeptide binding]; other site 406425000868 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 406425000869 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 406425000870 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 406425000871 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 406425000872 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 406425000873 RPB12 interaction site [polypeptide binding]; other site 406425000874 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 406425000875 RPB11 interaction site [polypeptide binding]; other site 406425000876 RPB12 interaction site [polypeptide binding]; other site 406425000877 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 406425000878 RPB3 interaction site [polypeptide binding]; other site 406425000879 RPB1 interaction site [polypeptide binding]; other site 406425000880 RPB11 interaction site [polypeptide binding]; other site 406425000881 RPB10 interaction site [polypeptide binding]; other site 406425000882 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 406425000883 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 406425000884 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 406425000885 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 406425000886 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 406425000887 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 406425000888 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 406425000889 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 406425000890 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 406425000891 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 406425000892 DNA binding site [nucleotide binding] 406425000893 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 406425000894 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 406425000895 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425000896 ATP binding site [chemical binding]; other site 406425000897 putative Mg++ binding site [ion binding]; other site 406425000898 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425000899 nucleotide binding region [chemical binding]; other site 406425000900 ATP-binding site [chemical binding]; other site 406425000901 RQC domain; Region: RQC; cl09632 406425000902 HRDC domain; Region: HRDC; cl02578 406425000903 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 406425000904 S17 interaction site [polypeptide binding]; other site 406425000905 S8 interaction site; other site 406425000906 16S rRNA interaction site [nucleotide binding]; other site 406425000907 streptomycin interaction site [chemical binding]; other site 406425000908 23S rRNA interaction site [nucleotide binding]; other site 406425000909 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 406425000910 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 406425000911 elongation factor G; Reviewed; Region: PRK00007 406425000912 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 406425000913 G1 box; other site 406425000914 putative GEF interaction site [polypeptide binding]; other site 406425000915 GTP/Mg2+ binding site [chemical binding]; other site 406425000916 Switch I region; other site 406425000917 G2 box; other site 406425000918 G3 box; other site 406425000919 Switch II region; other site 406425000920 G4 box; other site 406425000921 G5 box; other site 406425000922 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 406425000923 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 406425000924 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 406425000925 elongation factor Tu; Reviewed; Region: PRK00049 406425000926 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 406425000927 G1 box; other site 406425000928 GEF interaction site [polypeptide binding]; other site 406425000929 GTP/Mg2+ binding site [chemical binding]; other site 406425000930 Switch I region; other site 406425000931 G2 box; other site 406425000932 G3 box; other site 406425000933 Switch II region; other site 406425000934 G4 box; other site 406425000935 G5 box; other site 406425000936 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 406425000937 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 406425000938 Antibiotic Binding Site [chemical binding]; other site 406425000939 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 406425000940 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 406425000941 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 406425000942 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 406425000943 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 406425000944 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 406425000945 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 406425000946 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 406425000947 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 406425000948 putative translocon binding site; other site 406425000949 protein-rRNA interface [nucleotide binding]; other site 406425000950 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 406425000951 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 406425000952 G-X-X-G motif; other site 406425000953 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 406425000954 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 406425000955 23S rRNA interface [nucleotide binding]; other site 406425000956 5S rRNA interface [nucleotide binding]; other site 406425000957 putative antibiotic binding site [chemical binding]; other site 406425000958 L25 interface [polypeptide binding]; other site 406425000959 L27 interface [polypeptide binding]; other site 406425000960 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 406425000961 23S rRNA interface [nucleotide binding]; other site 406425000962 putative translocon interaction site; other site 406425000963 signal recognition particle (SRP54) interaction site; other site 406425000964 L23 interface [polypeptide binding]; other site 406425000965 trigger factor interaction site; other site 406425000966 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 406425000967 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 406425000968 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 406425000969 KOW motif; Region: KOW; cl00354 406425000970 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 406425000971 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 406425000972 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 406425000973 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 406425000974 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 406425000975 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 406425000976 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 406425000977 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 406425000978 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 406425000979 5S rRNA interface [nucleotide binding]; other site 406425000980 L27 interface [polypeptide binding]; other site 406425000981 23S rRNA interface [nucleotide binding]; other site 406425000982 L5 interface [polypeptide binding]; other site 406425000983 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 406425000984 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 406425000985 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 406425000986 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 406425000987 23S rRNA binding site [nucleotide binding]; other site 406425000988 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 406425000989 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 406425000990 SecY translocase; Region: SecY; pfam00344 406425000991 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 406425000992 rRNA binding site [nucleotide binding]; other site 406425000993 predicted 30S ribosome binding site; other site 406425000994 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 406425000995 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 406425000996 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 406425000997 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 406425000998 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 406425000999 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 406425001000 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425001001 RNA binding surface [nucleotide binding]; other site 406425001002 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 406425001003 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 406425001004 alphaNTD homodimer interface [polypeptide binding]; other site 406425001005 alphaNTD - beta interaction site [polypeptide binding]; other site 406425001006 alphaNTD - beta' interaction site [polypeptide binding]; other site 406425001007 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 406425001008 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 406425001009 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 406425001010 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 406425001011 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 406425001012 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 406425001013 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 406425001014 DsbD alpha interface [polypeptide binding]; other site 406425001015 catalytic residues [active] 406425001016 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 406425001017 dimer interface [polypeptide binding]; other site 406425001018 active site 406425001019 aspartate-rich active site metal binding site; other site 406425001020 allosteric magnesium binding site [ion binding]; other site 406425001021 Schiff base residues; other site 406425001022 Predicted GTPase [General function prediction only]; Region: COG0218 406425001023 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 406425001024 G1 box; other site 406425001025 GTP/Mg2+ binding site [chemical binding]; other site 406425001026 Switch I region; other site 406425001027 G2 box; other site 406425001028 G3 box; other site 406425001029 Switch II region; other site 406425001030 G4 box; other site 406425001031 G5 box; other site 406425001032 Cytochrome c; Region: Cytochrom_C; cl11414 406425001033 Cytochrome c; Region: Cytochrom_C; cl11414 406425001034 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 406425001035 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 406425001036 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 406425001037 TMAO/DMSO reductase; Reviewed; Region: PRK05363 406425001038 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 406425001039 Moco binding site; other site 406425001040 metal coordination site [ion binding]; other site 406425001041 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 406425001042 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 406425001043 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 406425001044 putative iron binding site [ion binding]; other site 406425001045 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 406425001046 Transglycosylase; Region: Transgly; cl07896 406425001047 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425001048 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 406425001049 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 406425001050 Secretin and TonB N terminus short domain; Region: STN; cl06624 406425001051 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425001052 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425001053 shikimate kinase; Reviewed; Region: aroK; PRK00131 406425001054 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 406425001055 ADP binding site [chemical binding]; other site 406425001056 magnesium binding site [ion binding]; other site 406425001057 putative shikimate binding site; other site 406425001058 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 406425001059 active site 406425001060 dimer interface [polypeptide binding]; other site 406425001061 metal binding site [ion binding]; metal-binding site 406425001062 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 406425001063 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425001064 Zn2+ binding site [ion binding]; other site 406425001065 Mg2+ binding site [ion binding]; other site 406425001066 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 406425001067 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425001068 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425001069 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 406425001070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425001071 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425001072 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425001073 dimer interface [polypeptide binding]; other site 406425001074 conserved gate region; other site 406425001075 putative PBP binding loops; other site 406425001076 ABC-ATPase subunit interface; other site 406425001077 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425001078 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 406425001079 Walker A/P-loop; other site 406425001080 ATP binding site [chemical binding]; other site 406425001081 Q-loop/lid; other site 406425001082 ABC transporter signature motif; other site 406425001083 Walker B; other site 406425001084 D-loop; other site 406425001085 H-loop/switch region; other site 406425001086 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 406425001087 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 406425001088 active site 406425001089 catalytic site [active] 406425001090 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425001091 Transposase IS200 like; Region: Y1_Tnp; cl00848 406425001092 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 406425001093 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 406425001094 active site 406425001095 dimer interface [polypeptide binding]; other site 406425001096 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 406425001097 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 406425001098 active site 406425001099 FMN binding site [chemical binding]; other site 406425001100 substrate binding site [chemical binding]; other site 406425001101 3Fe-4S cluster binding site [ion binding]; other site 406425001102 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 406425001103 domain interface; other site 406425001104 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 406425001105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001106 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 406425001107 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 406425001108 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 406425001109 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425001110 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425001111 benzoate transport; Region: 2A0115; TIGR00895 406425001112 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001113 putative substrate translocation pore; other site 406425001114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001115 NAD(P) binding site [chemical binding]; other site 406425001116 active site 406425001117 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 406425001118 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425001119 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 406425001120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001121 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 406425001122 Ubiquitin-like proteins; Region: UBQ; cl00155 406425001123 charged pocket; other site 406425001124 hydrophobic patch; other site 406425001125 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 406425001126 ThiS interaction site; other site 406425001127 putative active site [active] 406425001128 tetramer interface [polypeptide binding]; other site 406425001129 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 406425001130 thiamine phosphate binding site [chemical binding]; other site 406425001131 active site 406425001132 pyrophosphate binding site [ion binding]; other site 406425001133 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 406425001134 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 406425001135 Walker A/P-loop; other site 406425001136 ATP binding site [chemical binding]; other site 406425001137 Q-loop/lid; other site 406425001138 ABC transporter signature motif; other site 406425001139 Walker B; other site 406425001140 D-loop; other site 406425001141 H-loop/switch region; other site 406425001142 Permease; Region: Permease; cl00510 406425001143 mce related protein; Region: MCE; pfam02470 406425001144 VacJ like lipoprotein; Region: VacJ; cl01073 406425001145 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 406425001146 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 406425001147 anti sigma factor interaction site; other site 406425001148 regulatory phosphorylation site [posttranslational modification]; other site 406425001149 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 406425001150 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 406425001151 Walker A/P-loop; other site 406425001152 ATP binding site [chemical binding]; other site 406425001153 Q-loop/lid; other site 406425001154 ABC transporter signature motif; other site 406425001155 Walker B; other site 406425001156 D-loop; other site 406425001157 H-loop/switch region; other site 406425001158 ABC-2 type transporter; Region: ABC2_membrane; cl11417 406425001159 BolA-like protein; Region: BolA; cl00386 406425001160 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 406425001161 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 406425001162 hinge; other site 406425001163 active site 406425001164 ATP phosphoribosyltransferase; Region: HisG; cl15266 406425001165 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 406425001166 histidinol dehydrogenase; Region: hisD; TIGR00069 406425001167 NAD binding site [chemical binding]; other site 406425001168 dimerization interface [polypeptide binding]; other site 406425001169 product binding site; other site 406425001170 substrate binding site [chemical binding]; other site 406425001171 zinc binding site [ion binding]; other site 406425001172 catalytic residues [active] 406425001173 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 406425001174 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425001175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425001176 homodimer interface [polypeptide binding]; other site 406425001177 catalytic residue [active] 406425001178 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 406425001179 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 406425001180 putative active site pocket [active] 406425001181 4-fold oligomerization interface [polypeptide binding]; other site 406425001182 metal binding residues [ion binding]; metal-binding site 406425001183 3-fold/trimer interface [polypeptide binding]; other site 406425001184 MarC family integral membrane protein; Region: MarC; cl00919 406425001185 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 406425001186 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 406425001187 putative active site [active] 406425001188 oxyanion strand; other site 406425001189 catalytic triad [active] 406425001190 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 406425001191 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 406425001192 catalytic residues [active] 406425001193 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 406425001194 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 406425001195 substrate binding site [chemical binding]; other site 406425001196 glutamase interaction surface [polypeptide binding]; other site 406425001197 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 406425001198 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 406425001199 metal binding site [ion binding]; metal-binding site 406425001200 Predicted membrane protein [Function unknown]; Region: COG3671 406425001201 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 406425001202 nucleotide binding site/active site [active] 406425001203 HIT family signature motif; other site 406425001204 catalytic residue [active] 406425001205 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 406425001206 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 406425001207 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 406425001208 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 406425001209 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 406425001210 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425001211 protein binding site [polypeptide binding]; other site 406425001212 Uncharacterized conserved protein [Function unknown]; Region: COG0327 406425001213 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 406425001214 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 406425001215 [2Fe-2S] cluster binding site [ion binding]; other site 406425001216 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 406425001217 Qi binding site; other site 406425001218 intrachain domain interface; other site 406425001219 interchain domain interface [polypeptide binding]; other site 406425001220 cytochrome b; Provisional; Region: CYTB; MTH00145 406425001221 heme bH binding site [chemical binding]; other site 406425001222 heme bL binding site [chemical binding]; other site 406425001223 Qo binding site; other site 406425001224 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 406425001225 interchain domain interface [polypeptide binding]; other site 406425001226 intrachain domain interface; other site 406425001227 Qi binding site; other site 406425001228 Qo binding site; other site 406425001229 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 406425001230 stringent starvation protein A; Provisional; Region: sspA; PRK09481 406425001231 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 406425001232 C-terminal domain interface [polypeptide binding]; other site 406425001233 putative GSH binding site (G-site) [chemical binding]; other site 406425001234 dimer interface [polypeptide binding]; other site 406425001235 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 406425001236 dimer interface [polypeptide binding]; other site 406425001237 N-terminal domain interface [polypeptide binding]; other site 406425001238 Stringent starvation protein B; Region: SspB; cl01120 406425001239 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425001240 non-specific DNA binding site [nucleotide binding]; other site 406425001241 salt bridge; other site 406425001242 sequence-specific DNA binding site [nucleotide binding]; other site 406425001243 Domain of unknown function (DUF955); Region: DUF955; cl01076 406425001244 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425001245 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425001246 substrate binding pocket [chemical binding]; other site 406425001247 membrane-bound complex binding site; other site 406425001248 hinge residues; other site 406425001249 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 406425001250 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425001251 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425001252 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425001253 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425001254 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425001255 RHS Repeat; Region: RHS_repeat; cl11982 406425001256 RHS Repeat; Region: RHS_repeat; cl11982 406425001257 RHS Repeat; Region: RHS_repeat; cl11982 406425001258 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425001259 RHS Repeat; Region: RHS_repeat; cl11982 406425001260 RHS Repeat; Region: RHS_repeat; cl11982 406425001261 RHS Repeat; Region: RHS_repeat; cl11982 406425001262 RHS Repeat; Region: RHS_repeat; cl11982 406425001263 RHS Repeat; Region: RHS_repeat; cl11982 406425001264 RHS protein; Region: RHS; pfam03527 406425001265 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 406425001266 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425001267 RHS Repeat; Region: RHS_repeat; cl11982 406425001268 RHS protein; Region: RHS; pfam03527 406425001269 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 406425001270 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 406425001271 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 406425001272 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 406425001273 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 406425001274 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425001275 TPR motif; other site 406425001276 binding surface 406425001277 Protein of unknown function (DUF770); Region: DUF770; cl01402 406425001278 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 406425001279 Protein of unknown function (DUF877); Region: DUF877; pfam05943 406425001280 Protein of unknown function (DUF796); Region: DUF796; cl01226 406425001281 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 406425001282 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 406425001283 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 406425001284 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 406425001285 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 406425001286 Clp amino terminal domain; Region: Clp_N; pfam02861 406425001287 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425001288 Walker A motif; other site 406425001289 ATP binding site [chemical binding]; other site 406425001290 Walker B motif; other site 406425001291 arginine finger; other site 406425001292 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425001293 Walker A motif; other site 406425001294 ATP binding site [chemical binding]; other site 406425001295 Walker B motif; other site 406425001296 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425001297 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 406425001298 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 406425001299 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425001300 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425001301 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 406425001302 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425001303 ligand binding site [chemical binding]; other site 406425001304 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 406425001305 Predicted GTPases [General function prediction only]; Region: COG1161 406425001306 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 406425001307 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 406425001308 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 406425001309 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 406425001310 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 406425001311 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 406425001312 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 406425001313 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 406425001314 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425001315 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425001316 NAD(P) binding site [chemical binding]; other site 406425001317 transcriptional activator TtdR; Provisional; Region: PRK09801 406425001318 Helix-turn-helix domains; Region: HTH; cl00088 406425001319 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425001320 putative effector binding pocket; other site 406425001321 dimerization interface [polypeptide binding]; other site 406425001322 Peptidase family M1; Region: Peptidase_M1; pfam01433 406425001323 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 406425001324 Zn binding site [ion binding]; other site 406425001325 Late embryogenesis abundant protein; Region: LEA_2; cl12118 406425001326 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 406425001327 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 406425001328 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 406425001329 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425001330 S-adenosylmethionine binding site [chemical binding]; other site 406425001331 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425001332 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 406425001333 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425001334 Helix-turn-helix domains; Region: HTH; cl00088 406425001335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001336 putative substrate translocation pore; other site 406425001337 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425001338 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 406425001339 putative FMN binding site [chemical binding]; other site 406425001340 putative chaperone; Provisional; Region: PRK11678 406425001341 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 406425001342 DNA-binding site [nucleotide binding]; DNA binding site 406425001343 RNA-binding motif; other site 406425001344 amino acid transporter; Region: 2A0306; TIGR00909 406425001345 Spore germination protein; Region: Spore_permease; cl15802 406425001346 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 406425001347 putative active site [active] 406425001348 metal binding site [ion binding]; metal-binding site 406425001349 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 406425001350 Flavoprotein; Region: Flavoprotein; cl08021 406425001351 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 406425001352 putative GSH binding site [chemical binding]; other site 406425001353 catalytic residues [active] 406425001354 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 406425001355 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425001356 S-adenosylmethionine binding site [chemical binding]; other site 406425001357 peptide chain release factor 1; Validated; Region: prfA; PRK00591 406425001358 RF-1 domain; Region: RF-1; cl02875 406425001359 RF-1 domain; Region: RF-1; cl02875 406425001360 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 406425001361 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 406425001362 tRNA; other site 406425001363 putative tRNA binding site [nucleotide binding]; other site 406425001364 putative NADP binding site [chemical binding]; other site 406425001365 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 406425001366 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425001367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425001368 active site 406425001369 phosphorylation site [posttranslational modification] 406425001370 intermolecular recognition site; other site 406425001371 dimerization interface [polypeptide binding]; other site 406425001372 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425001373 DNA binding site [nucleotide binding] 406425001374 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 406425001375 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 406425001376 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 406425001377 active site 406425001378 Isochorismatase family; Region: Isochorismatase; pfam00857 406425001379 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425001380 catalytic triad [active] 406425001381 conserved cis-peptide bond; other site 406425001382 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 406425001383 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425001384 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 406425001385 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425001386 Walker A/P-loop; other site 406425001387 ATP binding site [chemical binding]; other site 406425001388 Q-loop/lid; other site 406425001389 ABC transporter signature motif; other site 406425001390 Walker B; other site 406425001391 D-loop; other site 406425001392 H-loop/switch region; other site 406425001393 ABC transporter; Region: ABC_tran_2; pfam12848 406425001394 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425001395 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 406425001396 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425001397 Helix-turn-helix domains; Region: HTH; cl00088 406425001398 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425001399 dimerization interface [polypeptide binding]; other site 406425001400 substrate binding pocket [chemical binding]; other site 406425001401 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 406425001402 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001403 putative substrate translocation pore; other site 406425001404 Protein of unknown function (DUF419); Region: DUF419; cl15265 406425001405 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 406425001406 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 406425001407 GTP-binding protein YchF; Reviewed; Region: PRK09601 406425001408 YchF GTPase; Region: YchF; cd01900 406425001409 G1 box; other site 406425001410 GTP/Mg2+ binding site [chemical binding]; other site 406425001411 Switch I region; other site 406425001412 G2 box; other site 406425001413 Switch II region; other site 406425001414 G3 box; other site 406425001415 G4 box; other site 406425001416 G5 box; other site 406425001417 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 406425001418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001419 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 406425001420 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 406425001421 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 406425001422 dimerization domain [polypeptide binding]; other site 406425001423 dimer interface [polypeptide binding]; other site 406425001424 catalytic residues [active] 406425001425 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 406425001426 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 406425001427 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 406425001428 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425001429 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 406425001430 ligand binding site [chemical binding]; other site 406425001431 active site 406425001432 UGI interface [polypeptide binding]; other site 406425001433 catalytic site [active] 406425001434 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 406425001435 putative active site [active] 406425001436 putative metal binding residues [ion binding]; other site 406425001437 signature motif; other site 406425001438 putative triphosphate binding site [ion binding]; other site 406425001439 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 406425001440 active site 406425001441 ribulose/triose binding site [chemical binding]; other site 406425001442 phosphate binding site [ion binding]; other site 406425001443 substrate (anthranilate) binding pocket [chemical binding]; other site 406425001444 product (indole) binding pocket [chemical binding]; other site 406425001445 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 406425001446 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 406425001447 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 406425001448 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 406425001449 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 406425001450 glutamine binding [chemical binding]; other site 406425001451 catalytic triad [active] 406425001452 anthranilate synthase component I; Provisional; Region: PRK13565 406425001453 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 406425001454 chorismate binding enzyme; Region: Chorismate_bind; cl10555 406425001455 phosphoglycolate phosphatase; Provisional; Region: PRK13222 406425001456 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425001457 motif II; other site 406425001458 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 406425001459 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 406425001460 substrate binding site [chemical binding]; other site 406425001461 hexamer interface [polypeptide binding]; other site 406425001462 metal binding site [ion binding]; metal-binding site 406425001463 Protein of unknown function (DUF525); Region: DUF525; cl01119 406425001464 MltA specific insert domain; Region: MltA; cl08398 406425001465 3D domain; Region: 3D; cl01439 406425001466 AMP-binding enzyme; Region: AMP-binding; cl15778 406425001467 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 406425001468 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425001469 CoenzymeA binding site [chemical binding]; other site 406425001470 subunit interaction site [polypeptide binding]; other site 406425001471 PHB binding site; other site 406425001472 enoyl-CoA hydratase; Provisional; Region: PRK08140 406425001473 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425001474 substrate binding site [chemical binding]; other site 406425001475 oxyanion hole (OAH) forming residues; other site 406425001476 trimer interface [polypeptide binding]; other site 406425001477 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 406425001478 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425001479 dimer interface [polypeptide binding]; other site 406425001480 active site 406425001481 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425001482 NAD(P) binding site [chemical binding]; other site 406425001483 catalytic residues [active] 406425001484 enoyl-CoA hydratase; Provisional; Region: PRK05862 406425001485 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425001486 substrate binding site [chemical binding]; other site 406425001487 oxyanion hole (OAH) forming residues; other site 406425001488 trimer interface [polypeptide binding]; other site 406425001489 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 406425001490 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 406425001491 putative [4Fe-4S] binding site [ion binding]; other site 406425001492 putative molybdopterin cofactor binding site [chemical binding]; other site 406425001493 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 406425001494 putative molybdopterin cofactor binding site; other site 406425001495 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 406425001496 AMP-binding enzyme; Region: AMP-binding; cl15778 406425001497 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425001498 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425001499 trimer interface [polypeptide binding]; other site 406425001500 eyelet of channel; other site 406425001501 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 406425001502 diiron binding motif [ion binding]; other site 406425001503 cell division protein MraZ; Reviewed; Region: PRK00326 406425001504 MraZ protein; Region: MraZ; pfam02381 406425001505 MraZ protein; Region: MraZ; pfam02381 406425001506 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 406425001507 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425001508 Septum formation initiator; Region: DivIC; cl11433 406425001509 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 406425001510 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 406425001511 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425001512 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 406425001513 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001514 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001515 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 406425001516 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 406425001517 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001518 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001519 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 406425001520 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 406425001521 Mg++ binding site [ion binding]; other site 406425001522 putative catalytic motif [active] 406425001523 putative substrate binding site [chemical binding]; other site 406425001524 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 406425001525 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001526 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001527 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 406425001528 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 406425001529 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 406425001530 active site 406425001531 homodimer interface [polypeptide binding]; other site 406425001532 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 406425001533 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 406425001534 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001535 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001536 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 406425001537 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 406425001538 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425001539 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 406425001540 Cell division protein FtsQ; Region: FtsQ; pfam03799 406425001541 cell division protein FtsA; Region: ftsA; TIGR01174 406425001542 Cell division protein FtsA; Region: FtsA; cl11496 406425001543 Cell division protein FtsA; Region: FtsA; cl11496 406425001544 cell division protein FtsZ; Validated; Region: PRK09330 406425001545 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 406425001546 nucleotide binding site [chemical binding]; other site 406425001547 SulA interaction site; other site 406425001548 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 406425001549 catalytic triad [active] 406425001550 dimer interface [polypeptide binding]; other site 406425001551 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 406425001552 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 406425001553 Protein of unknown function (DUF721); Region: DUF721; cl02324 406425001554 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 406425001555 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425001556 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 406425001557 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425001558 nucleotide binding region [chemical binding]; other site 406425001559 ATP-binding site [chemical binding]; other site 406425001560 SEC-C motif; Region: SEC-C; pfam02810 406425001561 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 406425001562 heterotetramer interface [polypeptide binding]; other site 406425001563 active site pocket [active] 406425001564 cleavage site 406425001565 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 406425001566 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425001567 Walker A motif; other site 406425001568 ATP binding site [chemical binding]; other site 406425001569 Walker B motif; other site 406425001570 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 406425001571 active site 406425001572 8-oxo-dGMP binding site [chemical binding]; other site 406425001573 nudix motif; other site 406425001574 metal binding site [ion binding]; metal-binding site 406425001575 Domain of unknown function (DUF329); Region: DUF329; cl01144 406425001576 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 406425001577 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 406425001578 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 406425001579 CoA-binding site [chemical binding]; other site 406425001580 ATP-binding [chemical binding]; other site 406425001581 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 406425001582 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 406425001583 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 406425001584 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425001585 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425001586 Type II/IV secretion system protein; Region: T2SE; pfam00437 406425001587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425001588 Walker A motif; other site 406425001589 ATP binding site [chemical binding]; other site 406425001590 Walker B motif; other site 406425001591 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 406425001592 Domain of unknown function DUF21; Region: DUF21; pfam01595 406425001593 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 406425001594 Transporter associated domain; Region: CorC_HlyC; cl08393 406425001595 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 406425001596 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 406425001597 substrate binding pocket [chemical binding]; other site 406425001598 chain length determination region; other site 406425001599 substrate-Mg2+ binding site; other site 406425001600 catalytic residues [active] 406425001601 aspartate-rich region 1; other site 406425001602 active site lid residues [active] 406425001603 aspartate-rich region 2; other site 406425001604 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 406425001605 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 406425001606 GTPase CgtA; Reviewed; Region: obgE; PRK12299 406425001607 GTP1/OBG; Region: GTP1_OBG; pfam01018 406425001608 Obg GTPase; Region: Obg; cd01898 406425001609 G1 box; other site 406425001610 GTP/Mg2+ binding site [chemical binding]; other site 406425001611 Switch I region; other site 406425001612 G2 box; other site 406425001613 G3 box; other site 406425001614 Switch II region; other site 406425001615 G4 box; other site 406425001616 G5 box; other site 406425001617 gamma-glutamyl kinase; Provisional; Region: PRK05429 406425001618 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 406425001619 nucleotide binding site [chemical binding]; other site 406425001620 homotetrameric interface [polypeptide binding]; other site 406425001621 putative phosphate binding site [ion binding]; other site 406425001622 putative allosteric binding site; other site 406425001623 PUA domain; Region: PUA; cl00607 406425001624 CNP1-like family; Region: CNP1; pfam08750 406425001625 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 406425001626 putative active site [active] 406425001627 Ap4A binding site [chemical binding]; other site 406425001628 nudix motif; other site 406425001629 putative metal binding site [ion binding]; other site 406425001630 prolyl-tRNA synthetase; Provisional; Region: PRK09194 406425001631 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 406425001632 dimer interface [polypeptide binding]; other site 406425001633 motif 1; other site 406425001634 active site 406425001635 motif 2; other site 406425001636 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 406425001637 putative deacylase active site [active] 406425001638 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 406425001639 active site 406425001640 motif 3; other site 406425001641 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 406425001642 anticodon binding site; other site 406425001643 MarC family integral membrane protein; Region: MarC; cl00919 406425001644 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425001645 active site 406425001646 signal recognition particle protein; Provisional; Region: PRK10867 406425001647 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 406425001648 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 406425001649 P loop; other site 406425001650 GTP binding site [chemical binding]; other site 406425001651 Signal peptide binding domain; Region: SRP_SPB; pfam02978 406425001652 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 406425001653 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 406425001654 amidase catalytic site [active] 406425001655 Zn binding residues [ion binding]; other site 406425001656 substrate binding site [chemical binding]; other site 406425001657 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 406425001658 ATP cone domain; Region: ATP-cone; pfam03477 406425001659 Class I ribonucleotide reductase; Region: RNR_I; cd01679 406425001660 active site 406425001661 dimer interface [polypeptide binding]; other site 406425001662 catalytic residues [active] 406425001663 effector binding site; other site 406425001664 R2 peptide binding site; other site 406425001665 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 406425001666 dimer interface [polypeptide binding]; other site 406425001667 putative radical transfer pathway; other site 406425001668 diiron center [ion binding]; other site 406425001669 tyrosyl radical; other site 406425001670 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 406425001671 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425001672 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 406425001673 substrate binding site [chemical binding]; other site 406425001674 ATP binding site [chemical binding]; other site 406425001675 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 406425001676 dimer interface [polypeptide binding]; other site 406425001677 catalytic triad [active] 406425001678 peroxidatic and resolving cysteines [active] 406425001679 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 406425001680 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 406425001681 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 406425001682 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425001683 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425001684 S-adenosylmethionine binding site [chemical binding]; other site 406425001685 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 406425001686 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425001687 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425001688 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 406425001689 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 406425001690 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425001691 carboxyltransferase (CT) interaction site; other site 406425001692 biotinylation site [posttranslational modification]; other site 406425001693 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 406425001694 active site 406425001695 trimer interface [polypeptide binding]; other site 406425001696 dimer interface [polypeptide binding]; other site 406425001697 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425001698 catalytic residues [active] 406425001699 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 406425001700 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 406425001701 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425001702 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425001703 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 406425001704 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425001705 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 406425001706 RNB domain; Region: RNB; pfam00773 406425001707 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 406425001708 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 406425001709 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 406425001710 shikimate binding site; other site 406425001711 NAD(P) binding site [chemical binding]; other site 406425001712 Transglycosylase; Region: Transgly; cl07896 406425001713 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425001714 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425001715 EF-hand domain pair; Region: EF_hand_5; pfam13499 406425001716 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425001717 Helix-turn-helix domains; Region: HTH; cl00088 406425001718 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425001719 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 406425001720 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 406425001721 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 406425001722 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 406425001723 active site 406425001724 intersubunit interface [polypeptide binding]; other site 406425001725 catalytic residue [active] 406425001726 short chain dehydrogenase; Provisional; Region: PRK07063 406425001727 classical (c) SDRs; Region: SDR_c; cd05233 406425001728 NAD(P) binding site [chemical binding]; other site 406425001729 active site 406425001730 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 406425001731 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 406425001732 ligand binding site [chemical binding]; other site 406425001733 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 406425001734 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425001735 Walker A/P-loop; other site 406425001736 ATP binding site [chemical binding]; other site 406425001737 Q-loop/lid; other site 406425001738 ABC transporter signature motif; other site 406425001739 Walker B; other site 406425001740 D-loop; other site 406425001741 H-loop/switch region; other site 406425001742 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425001743 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425001744 TM-ABC transporter signature motif; other site 406425001745 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425001746 classical (c) SDRs; Region: SDR_c; cd05233 406425001747 NAD(P) binding site [chemical binding]; other site 406425001748 active site 406425001749 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 406425001750 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 406425001751 active site 406425001752 catalytic residues [active] 406425001753 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 406425001754 active site 406425001755 dimer interface [polypeptide binding]; other site 406425001756 Competence-damaged protein; Region: CinA; cl00666 406425001757 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 406425001758 tetramer interfaces [polypeptide binding]; other site 406425001759 binuclear metal-binding site [ion binding]; other site 406425001760 thiamine monophosphate kinase; Provisional; Region: PRK05731 406425001761 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 406425001762 ATP binding site [chemical binding]; other site 406425001763 dimerization interface [polypeptide binding]; other site 406425001764 malic enzyme; Reviewed; Region: PRK12862 406425001765 Malic enzyme, N-terminal domain; Region: malic; pfam00390 406425001766 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 406425001767 putative NAD(P) binding site [chemical binding]; other site 406425001768 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 406425001769 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 406425001770 active site 406425001771 barstar interaction site; other site 406425001772 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 406425001773 putative RNAase interaction site [polypeptide binding]; other site 406425001774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 406425001775 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 406425001776 putative dimer interface [polypeptide binding]; other site 406425001777 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425001778 spermidine synthase; Provisional; Region: PRK00811 406425001779 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425001780 transketolase; Reviewed; Region: PRK12753 406425001781 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425001782 TPP-binding site [chemical binding]; other site 406425001783 dimer interface [polypeptide binding]; other site 406425001784 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425001785 PYR/PP interface [polypeptide binding]; other site 406425001786 dimer interface [polypeptide binding]; other site 406425001787 TPP binding site [chemical binding]; other site 406425001788 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425001789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001790 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 406425001791 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 406425001792 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425001793 Helix-turn-helix domains; Region: HTH; cl00088 406425001794 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425001795 dimerization interface [polypeptide binding]; other site 406425001796 substrate binding pocket [chemical binding]; other site 406425001797 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 406425001798 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425001799 NADP binding site [chemical binding]; other site 406425001800 homodimer interface [polypeptide binding]; other site 406425001801 active site 406425001802 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 406425001803 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 406425001804 putative NAD(P) binding site [chemical binding]; other site 406425001805 catalytic Zn binding site [ion binding]; other site 406425001806 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425001807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425001808 putative substrate translocation pore; other site 406425001809 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 406425001810 Helix-turn-helix domains; Region: HTH; cl00088 406425001811 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 406425001812 dimerization interface [polypeptide binding]; other site 406425001813 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425001814 DNA-binding site [nucleotide binding]; DNA binding site 406425001815 FCD domain; Region: FCD; cl11656 406425001816 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425001817 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425001818 allantoicase; Provisional; Region: PRK13257 406425001819 Allantoicase repeat; Region: Allantoicase; pfam03561 406425001820 Allantoicase repeat; Region: Allantoicase; pfam03561 406425001821 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 406425001822 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 406425001823 ferric uptake regulator; Provisional; Region: fur; PRK09462 406425001824 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 406425001825 metal binding site 2 [ion binding]; metal-binding site 406425001826 putative DNA binding helix; other site 406425001827 metal binding site 1 [ion binding]; metal-binding site 406425001828 dimer interface [polypeptide binding]; other site 406425001829 structural Zn2+ binding site [ion binding]; other site 406425001830 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 406425001831 dihydrodipicolinate reductase; Provisional; Region: PRK00048 406425001832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001833 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 406425001834 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425001835 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 406425001836 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 406425001837 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 406425001838 HIGH motif; other site 406425001839 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 406425001840 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425001841 active site 406425001842 KMSKS motif; other site 406425001843 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 406425001844 tRNA binding surface [nucleotide binding]; other site 406425001845 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 406425001846 Lipopolysaccharide-assembly; Region: LptE; cl01125 406425001847 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 406425001848 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 406425001849 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 406425001850 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 406425001851 putative catalytic cysteine [active] 406425001852 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 406425001853 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 406425001854 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425001855 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425001856 putative active site [active] 406425001857 Dehydratase family; Region: ILVD_EDD; cl00340 406425001858 6-phosphogluconate dehydratase; Region: edd; TIGR01196 406425001859 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 406425001860 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 406425001861 active site 406425001862 intersubunit interface [polypeptide binding]; other site 406425001863 catalytic residue [active] 406425001864 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 406425001865 GntP family permease; Region: GntP_permease; pfam02447 406425001866 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 406425001867 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 406425001868 ATP-binding site [chemical binding]; other site 406425001869 Gluconate-6-phosphate binding site [chemical binding]; other site 406425001870 Helix-turn-helix domains; Region: HTH; cl00088 406425001871 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 406425001872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001873 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425001874 adenylosuccinate lyase; Provisional; Region: PRK09285 406425001875 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 406425001876 tetramer interface [polypeptide binding]; other site 406425001877 active site 406425001878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425001879 Helix-turn-helix domains; Region: HTH; cl00088 406425001880 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425001881 dimerization interface [polypeptide binding]; other site 406425001882 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 406425001883 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 406425001884 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 406425001885 NAD(P) binding site [chemical binding]; other site 406425001886 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425001887 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425001888 substrate binding pocket [chemical binding]; other site 406425001889 membrane-bound complex binding site; other site 406425001890 hinge residues; other site 406425001891 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425001892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425001893 dimer interface [polypeptide binding]; other site 406425001894 conserved gate region; other site 406425001895 putative PBP binding loops; other site 406425001896 ABC-ATPase subunit interface; other site 406425001897 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425001898 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425001899 dimer interface [polypeptide binding]; other site 406425001900 conserved gate region; other site 406425001901 putative PBP binding loops; other site 406425001902 ABC-ATPase subunit interface; other site 406425001903 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425001904 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425001905 Walker A/P-loop; other site 406425001906 ATP binding site [chemical binding]; other site 406425001907 Q-loop/lid; other site 406425001908 ABC transporter signature motif; other site 406425001909 Walker B; other site 406425001910 D-loop; other site 406425001911 H-loop/switch region; other site 406425001912 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425001913 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 406425001914 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 406425001915 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425001916 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 406425001917 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 406425001918 putative dimer interface [polypeptide binding]; other site 406425001919 putative active site [active] 406425001920 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 406425001921 active site 406425001922 substrate binding pocket [chemical binding]; other site 406425001923 dimer interface [polypeptide binding]; other site 406425001924 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 406425001925 OsmC-like protein; Region: OsmC; cl00767 406425001926 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 406425001927 23S rRNA interface [nucleotide binding]; other site 406425001928 L3 interface [polypeptide binding]; other site 406425001929 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 406425001930 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 406425001931 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 406425001932 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 406425001933 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 406425001934 active site 406425001935 HIGH motif; other site 406425001936 dimer interface [polypeptide binding]; other site 406425001937 KMSKS motif; other site 406425001938 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425001939 RNA binding surface [nucleotide binding]; other site 406425001940 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 406425001941 putative active site [active] 406425001942 dimerization interface [polypeptide binding]; other site 406425001943 putative tRNAtyr binding site [nucleotide binding]; other site 406425001944 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425001945 catalytic core [active] 406425001946 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 406425001947 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 406425001948 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 406425001949 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425001950 Walker A motif; other site 406425001951 ATP binding site [chemical binding]; other site 406425001952 Walker B motif; other site 406425001953 arginine finger; other site 406425001954 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 406425001955 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 406425001956 RuvA N terminal domain; Region: RuvA_N; pfam01330 406425001957 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 406425001958 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 406425001959 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 406425001960 active site 406425001961 putative DNA-binding cleft [nucleotide binding]; other site 406425001962 dimer interface [polypeptide binding]; other site 406425001963 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 406425001964 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 406425001965 purine monophosphate binding site [chemical binding]; other site 406425001966 dimer interface [polypeptide binding]; other site 406425001967 putative catalytic residues [active] 406425001968 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 406425001969 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 406425001970 Helix-turn-helix domains; Region: HTH; cl00088 406425001971 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 406425001972 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 406425001973 FMN binding site [chemical binding]; other site 406425001974 active site 406425001975 catalytic residues [active] 406425001976 substrate binding site [chemical binding]; other site 406425001977 hypothetical protein; Provisional; Region: PRK06996 406425001978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425001979 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 406425001980 proline aminopeptidase P II; Provisional; Region: PRK10879 406425001981 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 406425001982 active site 406425001983 putative glutathione S-transferase; Provisional; Region: PRK10357 406425001984 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 406425001985 putative C-terminal domain interface [polypeptide binding]; other site 406425001986 putative GSH binding site (G-site) [chemical binding]; other site 406425001987 putative dimer interface [polypeptide binding]; other site 406425001988 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 406425001989 dimer interface [polypeptide binding]; other site 406425001990 N-terminal domain interface [polypeptide binding]; other site 406425001991 putative substrate binding pocket (H-site) [chemical binding]; other site 406425001992 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 406425001993 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 406425001994 active site 406425001995 FMN binding site [chemical binding]; other site 406425001996 substrate binding site [chemical binding]; other site 406425001997 3Fe-4S cluster binding site [ion binding]; other site 406425001998 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 406425001999 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 406425002000 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 406425002001 nudix motif; other site 406425002002 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 406425002003 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 406425002004 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425002005 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 406425002006 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 406425002007 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 406425002008 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425002009 Helix-turn-helix domains; Region: HTH; cl00088 406425002010 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 406425002011 putative substrate binding pocket [chemical binding]; other site 406425002012 putative dimerization interface [polypeptide binding]; other site 406425002013 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 406425002014 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425002015 putative active site [active] 406425002016 catalytic triad [active] 406425002017 putative dimer interface [polypeptide binding]; other site 406425002018 Helix-turn-helix domains; Region: HTH; cl00088 406425002019 WYL domain; Region: WYL; cl14852 406425002020 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 406425002021 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425002022 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425002023 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 406425002024 THUMP domain; Region: THUMP; cl12076 406425002025 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425002026 Site-specific recombinase; Region: SpecificRecomb; cl15411 406425002027 Protein of unknown function (DUF330); Region: DUF330; cl01135 406425002028 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 406425002029 mce related protein; Region: MCE; pfam02470 406425002030 mce related protein; Region: MCE; pfam02470 406425002031 Paraquat-inducible protein A; Region: PqiA; pfam04403 406425002032 Paraquat-inducible protein A; Region: PqiA; pfam04403 406425002033 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 406425002034 YceI-like domain; Region: YceI; cl01001 406425002035 YceI-like domain; Region: YceI; cl01001 406425002036 citrate-proton symporter; Provisional; Region: PRK15075 406425002037 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002038 putative substrate translocation pore; other site 406425002039 C-terminal peptidase (prc); Region: prc; TIGR00225 406425002040 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 406425002041 protein binding site [polypeptide binding]; other site 406425002042 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 406425002043 Catalytic dyad [active] 406425002044 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 406425002045 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 406425002046 Protein export membrane protein; Region: SecD_SecF; cl14618 406425002047 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 406425002048 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 406425002049 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 406425002050 Protein export membrane protein; Region: SecD_SecF; cl14618 406425002051 Preprotein translocase subunit; Region: YajC; cl00806 406425002052 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 406425002053 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 406425002054 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 406425002055 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 406425002056 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 406425002057 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 406425002058 ssDNA binding site; other site 406425002059 generic binding surface II; other site 406425002060 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425002061 ATP binding site [chemical binding]; other site 406425002062 putative Mg++ binding site [ion binding]; other site 406425002063 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425002064 nucleotide binding region [chemical binding]; other site 406425002065 ATP-binding site [chemical binding]; other site 406425002066 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425002067 Helix-turn-helix domains; Region: HTH; cl00088 406425002068 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 406425002069 dimerization interface [polypeptide binding]; other site 406425002070 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 406425002071 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 406425002072 dimer interface [polypeptide binding]; other site 406425002073 active site 406425002074 heme binding site [chemical binding]; other site 406425002075 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 406425002076 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 406425002077 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 406425002078 dimerization interface [polypeptide binding]; other site 406425002079 DPS ferroxidase diiron center [ion binding]; other site 406425002080 ion pore; other site 406425002081 UbiA prenyltransferase family; Region: UbiA; cl00337 406425002082 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 406425002083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002084 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 406425002085 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425002086 catalytic residue [active] 406425002087 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 406425002088 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 406425002089 Cysteine-rich domain; Region: CCG; pfam02754 406425002090 Cysteine-rich domain; Region: CCG; pfam02754 406425002091 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 406425002092 FAD binding domain; Region: FAD_binding_4; pfam01565 406425002093 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 406425002094 FAD binding domain; Region: FAD_binding_4; pfam01565 406425002095 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 406425002096 FAD binding domain; Region: FAD_binding_4; pfam01565 406425002097 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 406425002098 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 406425002099 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 406425002100 heme-binding site [chemical binding]; other site 406425002101 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 406425002102 FAD binding pocket [chemical binding]; other site 406425002103 FAD binding motif [chemical binding]; other site 406425002104 phosphate binding motif [ion binding]; other site 406425002105 beta-alpha-beta structure motif; other site 406425002106 NAD binding pocket [chemical binding]; other site 406425002107 Heme binding pocket [chemical binding]; other site 406425002108 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 406425002109 putative active site [active] 406425002110 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425002111 NeuB family; Region: NeuB; cl00496 406425002112 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 406425002113 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 406425002114 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 406425002115 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425002116 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 406425002117 putative active site [active] 406425002118 catalytic triad [active] 406425002119 dimer interface [polypeptide binding]; other site 406425002120 TIGR02099 family protein; Region: TIGR02099 406425002121 AsmA-like C-terminal region; Region: AsmA_2; cl15864 406425002122 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 406425002123 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 406425002124 metal binding triad; other site 406425002125 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 406425002126 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 406425002127 metal binding triad; other site 406425002128 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 406425002129 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 406425002130 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 406425002131 Walker A/P-loop; other site 406425002132 ATP binding site [chemical binding]; other site 406425002133 Q-loop/lid; other site 406425002134 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 406425002135 ABC transporter signature motif; other site 406425002136 Walker B; other site 406425002137 D-loop; other site 406425002138 H-loop/switch region; other site 406425002139 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 406425002140 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 406425002141 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 406425002142 Helix-turn-helix domains; Region: HTH; cl00088 406425002143 ferrochelatase; Reviewed; Region: hemH; PRK00035 406425002144 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 406425002145 C-terminal domain interface [polypeptide binding]; other site 406425002146 active site 406425002147 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 406425002148 active site 406425002149 N-terminal domain interface [polypeptide binding]; other site 406425002150 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425002151 RNA binding surface [nucleotide binding]; other site 406425002152 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 406425002153 dimer interface [polypeptide binding]; other site 406425002154 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 406425002155 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425002156 catalytic residues [active] 406425002157 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 406425002158 chaperone protein DnaJ; Provisional; Region: PRK10767 406425002159 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 406425002160 HSP70 interaction site [polypeptide binding]; other site 406425002161 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 406425002162 Zn binding sites [ion binding]; other site 406425002163 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 406425002164 dimer interface [polypeptide binding]; other site 406425002165 chorismate binding enzyme; Region: Chorismate_bind; cl10555 406425002166 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 406425002167 homodimer interface [polypeptide binding]; other site 406425002168 substrate-cofactor binding pocket; other site 406425002169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002170 catalytic residue [active] 406425002171 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 406425002172 oligomerization interface [polypeptide binding]; other site 406425002173 active site 406425002174 metal binding site [ion binding]; metal-binding site 406425002175 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 406425002176 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 406425002177 Substrate-binding site [chemical binding]; other site 406425002178 Substrate specificity [chemical binding]; other site 406425002179 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 406425002180 catalytic center binding site [active] 406425002181 ATP binding site [chemical binding]; other site 406425002182 poly(A) polymerase; Region: pcnB; TIGR01942 406425002183 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 406425002184 active site 406425002185 NTP binding site [chemical binding]; other site 406425002186 metal binding triad [ion binding]; metal-binding site 406425002187 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 406425002188 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 406425002189 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 406425002190 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425002191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425002192 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 406425002193 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 406425002194 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 406425002195 dimerization interface [polypeptide binding]; other site 406425002196 putative ATP binding site [chemical binding]; other site 406425002197 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002198 putative substrate translocation pore; other site 406425002199 tetracycline repressor protein TetR; Provisional; Region: PRK13756 406425002200 Helix-turn-helix domains; Region: HTH; cl00088 406425002201 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 406425002202 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425002203 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 406425002204 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 406425002205 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425002206 ATP binding site [chemical binding]; other site 406425002207 Mg2+ binding site [ion binding]; other site 406425002208 G-X-G motif; other site 406425002209 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 406425002210 ATP binding site [chemical binding]; other site 406425002211 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 406425002212 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 406425002213 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425002214 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425002215 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425002216 Substrate binding site; other site 406425002217 Cupin domain; Region: Cupin_2; cl09118 406425002218 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 406425002219 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425002220 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 406425002221 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425002222 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425002223 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425002224 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 406425002225 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425002226 binding surface 406425002227 TPR motif; other site 406425002228 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425002229 TPR motif; other site 406425002230 binding surface 406425002231 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 406425002232 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002233 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425002234 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425002235 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 406425002236 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 406425002237 Walker A/P-loop; other site 406425002238 ATP binding site [chemical binding]; other site 406425002239 Q-loop/lid; other site 406425002240 ABC transporter signature motif; other site 406425002241 Walker B; other site 406425002242 D-loop; other site 406425002243 H-loop/switch region; other site 406425002244 ABC-2 type transporter; Region: ABC2_membrane; cl11417 406425002245 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 406425002246 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 406425002247 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 406425002248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002249 NAD(P) binding site [chemical binding]; other site 406425002250 active site 406425002251 Sulfatase; Region: Sulfatase; cl10460 406425002252 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 406425002253 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 406425002254 active site 406425002255 Acyl transferase domain; Region: Acyl_transf_1; cl08282 406425002256 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 406425002257 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425002258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002259 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 406425002260 Enoylreductase; Region: PKS_ER; smart00829 406425002261 NAD(P) binding site [chemical binding]; other site 406425002262 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 406425002263 putative NADP binding site [chemical binding]; other site 406425002264 active site 406425002265 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425002266 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 406425002267 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 406425002268 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 406425002269 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 406425002270 substrate-cofactor binding pocket; other site 406425002271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002272 catalytic residue [active] 406425002273 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425002274 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 406425002275 ligand-binding site [chemical binding]; other site 406425002276 TIGR03442 family protein; Region: TIGR03442 406425002277 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 406425002278 putative active site [active] 406425002279 putative dimer interface [polypeptide binding]; other site 406425002280 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425002281 Cupin domain; Region: Cupin_2; cl09118 406425002282 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425002283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425002284 yiaA/B two helix domain; Region: YiaAB; cl01759 406425002285 yiaA/B two helix domain; Region: YiaAB; cl01759 406425002286 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 406425002287 PemK-like protein; Region: PemK; cl00995 406425002288 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 406425002289 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425002290 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 406425002291 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 406425002292 Tetratricopeptide repeat; Region: TPR_6; pfam13174 406425002293 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 406425002294 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425002295 ligand binding site [chemical binding]; other site 406425002296 translocation protein TolB; Provisional; Region: tolB; PRK02889 406425002297 TolB amino-terminal domain; Region: TolB_N; cl00639 406425002298 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 406425002299 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 406425002300 Gram-negative bacterial tonB protein; Region: TonB; cl10048 406425002301 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 406425002302 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425002303 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425002304 active site 406425002305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002306 NAD(P) binding site [chemical binding]; other site 406425002307 active site 406425002308 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 406425002309 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 406425002310 dimer interface [polypeptide binding]; other site 406425002311 active site 406425002312 glycine-pyridoxal phosphate binding site [chemical binding]; other site 406425002313 folate binding site [chemical binding]; other site 406425002314 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 406425002315 ATP cone domain; Region: ATP-cone; pfam03477 406425002316 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 406425002317 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 406425002318 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 406425002319 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 406425002320 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 406425002321 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 406425002322 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 406425002323 dimer interface [polypeptide binding]; other site 406425002324 decamer (pentamer of dimers) interface [polypeptide binding]; other site 406425002325 catalytic triad [active] 406425002326 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 406425002327 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425002328 FAD binding site [chemical binding]; other site 406425002329 substrate binding pocket [chemical binding]; other site 406425002330 catalytic base [active] 406425002331 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425002332 Helix-turn-helix domains; Region: HTH; cl00088 406425002333 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425002334 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 406425002335 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 406425002336 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 406425002337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002339 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 406425002340 benzoate transport; Region: 2A0115; TIGR00895 406425002341 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002342 putative substrate translocation pore; other site 406425002343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002344 putative substrate translocation pore; other site 406425002345 Cupin domain; Region: Cupin_2; cl09118 406425002346 fumarylacetoacetase; Region: PLN02856 406425002347 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 406425002348 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425002349 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425002350 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425002351 putative active site [active] 406425002352 putative NTP binding site [chemical binding]; other site 406425002353 putative nucleic acid binding site [nucleotide binding]; other site 406425002354 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425002355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002356 putative substrate translocation pore; other site 406425002357 MFS transport protein AraJ; Provisional; Region: PRK10091 406425002358 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002359 putative substrate translocation pore; other site 406425002360 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 406425002361 putative FMN binding site [chemical binding]; other site 406425002362 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 406425002363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002364 transcriptional regulator; Provisional; Region: PRK10632 406425002365 Helix-turn-helix domains; Region: HTH; cl00088 406425002366 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425002367 putative effector binding pocket; other site 406425002368 dimerization interface [polypeptide binding]; other site 406425002369 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 406425002370 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425002371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425002372 catalytic residue [active] 406425002373 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425002374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425002375 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425002376 EamA-like transporter family; Region: EamA; cl01037 406425002377 Helix-turn-helix domains; Region: HTH; cl00088 406425002378 Integrase core domain; Region: rve; cl01316 406425002379 Integrase core domain; Region: rve_3; cl15866 406425002380 RES domain; Region: RES; cl02411 406425002381 major facilitator superfamily transporter; Provisional; Region: PRK05122 406425002382 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002383 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 406425002384 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425002385 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425002386 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 406425002387 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 406425002388 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425002389 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425002390 XdhC Rossmann domain; Region: XdhC_C; pfam13478 406425002391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 406425002392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425002393 Helix-turn-helix domains; Region: HTH; cl00088 406425002394 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425002395 dimerization interface [polypeptide binding]; other site 406425002396 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 406425002397 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 406425002398 putative catalytic residue [active] 406425002399 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 406425002400 NMT1-like family; Region: NMT1_2; cl15260 406425002401 BON domain; Region: BON; cl02771 406425002402 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 406425002403 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425002404 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425002405 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 406425002406 active site 406425002407 NTP binding site [chemical binding]; other site 406425002408 metal binding triad [ion binding]; metal-binding site 406425002409 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425002410 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425002411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002412 putative substrate translocation pore; other site 406425002413 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 406425002414 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 406425002415 catalytic residues [active] 406425002416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 406425002417 YheO-like PAS domain; Region: PAS_6; pfam08348 406425002418 Helix-turn-helix domains; Region: HTH; cl00088 406425002419 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 406425002420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002421 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425002422 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425002423 substrate binding pocket [chemical binding]; other site 406425002424 membrane-bound complex binding site; other site 406425002425 hinge residues; other site 406425002426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002427 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425002428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002429 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425002430 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425002431 RNA polymerase sigma factor; Provisional; Region: PRK12511 406425002432 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425002433 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 406425002434 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 406425002435 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 406425002436 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 406425002437 putative hydrophobic ligand binding site [chemical binding]; other site 406425002438 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 406425002439 oligomerisation interface [polypeptide binding]; other site 406425002440 mobile loop; other site 406425002441 roof hairpin; other site 406425002442 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 406425002443 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 406425002444 ring oligomerisation interface [polypeptide binding]; other site 406425002445 ATP/Mg binding site [chemical binding]; other site 406425002446 stacking interactions; other site 406425002447 hinge regions; other site 406425002448 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 406425002449 dimer interface [polypeptide binding]; other site 406425002450 substrate binding site [chemical binding]; other site 406425002451 ATP binding site [chemical binding]; other site 406425002452 Rubredoxin [Energy production and conversion]; Region: COG1773 406425002453 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 406425002454 iron binding site [ion binding]; other site 406425002455 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 406425002456 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 406425002457 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425002458 active site 406425002459 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 406425002460 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 406425002461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002462 dihydroorotase; Provisional; Region: PRK07627 406425002463 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425002464 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 406425002465 active site 406425002466 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425002467 putative acyl-acceptor binding pocket; other site 406425002468 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 406425002469 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 406425002470 active site 406425002471 metal binding site [ion binding]; metal-binding site 406425002472 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 406425002473 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 406425002474 NAD binding site [chemical binding]; other site 406425002475 substrate binding site [chemical binding]; other site 406425002476 homodimer interface [polypeptide binding]; other site 406425002477 active site 406425002478 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 406425002479 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 406425002480 substrate binding site; other site 406425002481 tetramer interface; other site 406425002482 Cupin domain; Region: Cupin_2; cl09118 406425002483 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 406425002484 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 406425002485 NADP binding site [chemical binding]; other site 406425002486 active site 406425002487 putative substrate binding site [chemical binding]; other site 406425002488 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 406425002489 Ligand binding site; other site 406425002490 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 406425002491 ABC-2 type transporter; Region: ABC2_membrane; cl11417 406425002492 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 406425002493 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 406425002494 Walker A/P-loop; other site 406425002495 ATP binding site [chemical binding]; other site 406425002496 Q-loop/lid; other site 406425002497 ABC transporter signature motif; other site 406425002498 Walker B; other site 406425002499 D-loop; other site 406425002500 H-loop/switch region; other site 406425002501 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 406425002502 Probable Catalytic site; other site 406425002503 metal-binding site 406425002504 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002505 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 406425002506 Probable Catalytic site; other site 406425002507 metal-binding site 406425002508 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425002509 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425002510 Substrate binding site; other site 406425002511 Cupin domain; Region: Cupin_2; cl09118 406425002512 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425002513 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 406425002514 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002515 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 406425002516 Probable Catalytic site; other site 406425002517 metal-binding site 406425002518 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425002519 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 406425002520 Probable Catalytic site; other site 406425002521 metal-binding site 406425002522 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002523 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 406425002524 Probable Catalytic site; other site 406425002525 metal-binding site 406425002526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 406425002527 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 406425002528 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425002529 active site 406425002530 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425002531 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425002532 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 406425002533 putative NAD(P) binding site [chemical binding]; other site 406425002534 active site 406425002535 putative substrate binding site [chemical binding]; other site 406425002536 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 406425002537 Mg++ binding site [ion binding]; other site 406425002538 putative catalytic motif [active] 406425002539 putative substrate binding site [chemical binding]; other site 406425002540 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 406425002541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002542 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 406425002543 NAD(P) binding site [chemical binding]; other site 406425002544 homodimer interface [polypeptide binding]; other site 406425002545 substrate binding site [chemical binding]; other site 406425002546 active site 406425002547 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 406425002548 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 406425002549 Mg++ binding site [ion binding]; other site 406425002550 putative catalytic motif [active] 406425002551 UDP-glucose 4-epimerase; Region: PLN02240 406425002552 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 406425002553 NAD binding site [chemical binding]; other site 406425002554 homodimer interface [polypeptide binding]; other site 406425002555 active site 406425002556 substrate binding site [chemical binding]; other site 406425002557 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 406425002558 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425002559 putative ADP-binding pocket [chemical binding]; other site 406425002560 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425002561 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425002562 active site 406425002563 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 406425002564 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 406425002565 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 406425002566 active site 406425002567 substrate binding site [chemical binding]; other site 406425002568 metal binding site [ion binding]; metal-binding site 406425002569 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425002570 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425002571 putative active site [active] 406425002572 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 406425002573 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 406425002574 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 406425002575 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425002576 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425002577 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 406425002578 UreF; Region: UreF; pfam01730 406425002579 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 406425002580 dimer interface [polypeptide binding]; other site 406425002581 catalytic residues [active] 406425002582 urease subunit alpha; Reviewed; Region: ureC; PRK13207 406425002583 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 406425002584 subunit interactions [polypeptide binding]; other site 406425002585 active site 406425002586 flap region; other site 406425002587 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 406425002588 gamma-beta subunit interface [polypeptide binding]; other site 406425002589 alpha-beta subunit interface [polypeptide binding]; other site 406425002590 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 406425002591 alpha-gamma subunit interface [polypeptide binding]; other site 406425002592 beta-gamma subunit interface [polypeptide binding]; other site 406425002593 UreD urease accessory protein; Region: UreD; cl00530 406425002594 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 406425002595 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 406425002596 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 406425002597 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 406425002598 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425002599 Walker A/P-loop; other site 406425002600 ATP binding site [chemical binding]; other site 406425002601 Q-loop/lid; other site 406425002602 ABC transporter signature motif; other site 406425002603 Walker B; other site 406425002604 D-loop; other site 406425002605 H-loop/switch region; other site 406425002606 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 406425002607 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425002608 Walker A/P-loop; other site 406425002609 ATP binding site [chemical binding]; other site 406425002610 Q-loop/lid; other site 406425002611 ABC transporter signature motif; other site 406425002612 Walker B; other site 406425002613 D-loop; other site 406425002614 H-loop/switch region; other site 406425002615 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 406425002616 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425002617 TM-ABC transporter signature motif; other site 406425002618 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425002619 TM-ABC transporter signature motif; other site 406425002620 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425002621 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 406425002622 putative ligand binding site [chemical binding]; other site 406425002623 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425002624 active site residue [active] 406425002625 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 406425002626 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425002627 S-adenosylmethionine binding site [chemical binding]; other site 406425002628 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 406425002629 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425002630 FeS/SAM binding site; other site 406425002631 HemN C-terminal domain; Region: HemN_C; pfam06969 406425002632 Flagellin N-methylase; Region: FliB; cl00497 406425002633 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 406425002634 Bacitracin resistance protein BacA; Region: BacA; cl00858 406425002635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425002636 S-adenosylmethionine binding site [chemical binding]; other site 406425002637 Helix-turn-helix domains; Region: HTH; cl00088 406425002638 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425002639 Helix-turn-helix domains; Region: HTH; cl00088 406425002640 Integrase core domain; Region: rve; cl01316 406425002641 Cupin domain; Region: Cupin_2; cl09118 406425002642 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425002643 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 406425002644 putative active site pocket [active] 406425002645 metal binding site [ion binding]; metal-binding site 406425002646 LysE type translocator; Region: LysE; cl00565 406425002647 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 406425002648 Helix-turn-helix domains; Region: HTH; cl00088 406425002649 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 406425002650 putative dimerization interface [polypeptide binding]; other site 406425002651 benzoate transport; Region: 2A0115; TIGR00895 406425002652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002653 putative substrate translocation pore; other site 406425002654 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425002655 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425002656 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425002657 substrate binding site [chemical binding]; other site 406425002658 oxyanion hole (OAH) forming residues; other site 406425002659 trimer interface [polypeptide binding]; other site 406425002660 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 406425002661 Chromate transporter; Region: Chromate_transp; pfam02417 406425002662 Chromate transporter; Region: Chromate_transp; pfam02417 406425002663 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 406425002664 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425002665 DNA-binding site [nucleotide binding]; DNA binding site 406425002666 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425002667 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 406425002668 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 406425002669 dimer interface [polypeptide binding]; other site 406425002670 ADP-ribose binding site [chemical binding]; other site 406425002671 active site 406425002672 nudix motif; other site 406425002673 metal binding site [ion binding]; metal-binding site 406425002674 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 406425002675 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 406425002676 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425002677 active site 406425002678 catalytic triad [active] 406425002679 calcium binding site [ion binding]; other site 406425002680 CrcB-like protein; Region: CRCB; cl09114 406425002681 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 406425002682 YGGT family; Region: YGGT; cl00508 406425002683 YGGT family; Region: YGGT; cl00508 406425002684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002685 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 406425002686 LysE type translocator; Region: LysE; cl00565 406425002687 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 406425002688 murein transglycosylase C; Provisional; Region: mltC; PRK11671 406425002689 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425002690 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425002691 catalytic residue [active] 406425002692 aminotransferase; Validated; Region: PRK07337 406425002693 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425002694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002695 homodimer interface [polypeptide binding]; other site 406425002696 catalytic residue [active] 406425002697 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 406425002698 putative RNA binding site [nucleotide binding]; other site 406425002699 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 406425002700 homopentamer interface [polypeptide binding]; other site 406425002701 active site 406425002702 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 406425002703 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 406425002704 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 406425002705 dimerization interface [polypeptide binding]; other site 406425002706 active site 406425002707 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 406425002708 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 406425002709 Lumazine binding domain; Region: Lum_binding; pfam00677 406425002710 Lumazine binding domain; Region: Lum_binding; pfam00677 406425002711 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 406425002712 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 406425002713 catalytic motif [active] 406425002714 Zn binding site [ion binding]; other site 406425002715 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 406425002716 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 406425002717 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425002718 inhibitor-cofactor binding pocket; inhibition site 406425002719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002720 catalytic residue [active] 406425002721 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 406425002722 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002723 putative substrate translocation pore; other site 406425002724 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 406425002725 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 406425002726 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425002727 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425002728 putative active site [active] 406425002729 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 406425002730 putative active site [active] 406425002731 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 406425002732 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 406425002733 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 406425002734 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425002735 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425002736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425002737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425002738 dimer interface [polypeptide binding]; other site 406425002739 conserved gate region; other site 406425002740 putative PBP binding loops; other site 406425002741 ABC-ATPase subunit interface; other site 406425002742 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425002743 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 406425002744 Walker A/P-loop; other site 406425002745 ATP binding site [chemical binding]; other site 406425002746 Q-loop/lid; other site 406425002747 ABC transporter signature motif; other site 406425002748 Walker B; other site 406425002749 D-loop; other site 406425002750 H-loop/switch region; other site 406425002751 TOBE domain; Region: TOBE_2; cl01440 406425002752 UPF0126 domain; Region: UPF0126; pfam03458 406425002753 UPF0126 domain; Region: UPF0126; pfam03458 406425002754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 406425002755 Smr domain; Region: Smr; cl02619 406425002756 thioredoxin reductase; Provisional; Region: PRK10262 406425002757 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425002758 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 406425002759 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 406425002760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425002761 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 406425002762 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 406425002763 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 406425002764 recombination factor protein RarA; Reviewed; Region: PRK13342 406425002765 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425002766 Walker A motif; other site 406425002767 ATP binding site [chemical binding]; other site 406425002768 Walker B motif; other site 406425002769 arginine finger; other site 406425002770 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 406425002771 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 406425002772 seryl-tRNA synthetase; Provisional; Region: PRK05431 406425002773 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 406425002774 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 406425002775 dimer interface [polypeptide binding]; other site 406425002776 active site 406425002777 motif 1; other site 406425002778 motif 2; other site 406425002779 motif 3; other site 406425002780 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 406425002781 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425002782 Di-iron ligands [ion binding]; other site 406425002783 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425002784 septum formation inhibitor; Reviewed; Region: PRK01973 406425002785 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 406425002786 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 406425002787 cell division inhibitor MinD; Provisional; Region: PRK10818 406425002788 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 406425002789 Switch I; other site 406425002790 Switch II; other site 406425002791 Septum formation topological specificity factor MinE; Region: MinE; cl00538 406425002792 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 406425002793 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 406425002794 putative ion selectivity filter; other site 406425002795 putative pore gating glutamate residue; other site 406425002796 putative H+/Cl- coupling transport residue; other site 406425002797 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425002798 putative active site [active] 406425002799 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002800 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425002801 putative substrate translocation pore; other site 406425002802 Gram-negative bacterial tonB protein; Region: TonB; cl10048 406425002803 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 406425002804 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425002805 FeS/SAM binding site; other site 406425002806 HemN C-terminal domain; Region: HemN_C; pfam06969 406425002807 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 406425002808 active site 406425002809 dimerization interface [polypeptide binding]; other site 406425002810 ribonuclease PH; Reviewed; Region: rph; PRK00173 406425002811 Ribonuclease PH; Region: RNase_PH_bact; cd11362 406425002812 hexamer interface [polypeptide binding]; other site 406425002813 active site 406425002814 hypothetical protein; Provisional; Region: PRK11820 406425002815 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 406425002816 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 406425002817 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 406425002818 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 406425002819 catalytic site [active] 406425002820 G-X2-G-X-G-K; other site 406425002821 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 406425002822 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 406425002823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425002824 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 406425002825 synthetase active site [active] 406425002826 NTP binding site [chemical binding]; other site 406425002827 metal binding site [ion binding]; metal-binding site 406425002828 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 406425002829 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 406425002830 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 406425002831 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 406425002832 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 406425002833 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425002834 trimer interface [polypeptide binding]; other site 406425002835 eyelet of channel; other site 406425002836 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 406425002837 DNA-binding site [nucleotide binding]; DNA binding site 406425002838 RNA-binding motif; other site 406425002839 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 406425002840 active site 406425002841 catalytic site [active] 406425002842 substrate binding site [chemical binding]; other site 406425002843 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 406425002844 GIY-YIG motif/motif A; other site 406425002845 active site 406425002846 catalytic site [active] 406425002847 putative DNA binding site [nucleotide binding]; other site 406425002848 metal binding site [ion binding]; metal-binding site 406425002849 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 406425002850 Chorismate mutase type II; Region: CM_2; cl00693 406425002851 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 406425002852 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 406425002853 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425002854 N-terminal plug; other site 406425002855 ligand-binding site [chemical binding]; other site 406425002856 fructose-1,6-bisphosphatase family protein; Region: PLN02628 406425002857 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 406425002858 AMP binding site [chemical binding]; other site 406425002859 metal binding site [ion binding]; metal-binding site 406425002860 active site 406425002861 aminopeptidase N; Provisional; Region: pepN; PRK14015 406425002862 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 406425002863 active site 406425002864 Zn binding site [ion binding]; other site 406425002865 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 406425002866 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 406425002867 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 406425002868 guanine deaminase; Provisional; Region: PRK09228 406425002869 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 406425002870 active site 406425002871 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 406425002872 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 406425002873 active site 406425002874 purine riboside binding site [chemical binding]; other site 406425002875 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 406425002876 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 406425002877 XdhC Rossmann domain; Region: XdhC_C; pfam13478 406425002878 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 406425002879 amidase; Provisional; Region: PRK07056 406425002880 Amidase; Region: Amidase; cl11426 406425002881 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425002882 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425002883 DNA-binding site [nucleotide binding]; DNA binding site 406425002884 FCD domain; Region: FCD; cl11656 406425002885 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 406425002886 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 406425002887 catalytic triad [active] 406425002888 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 406425002889 citrate-proton symporter; Provisional; Region: PRK15075 406425002890 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425002891 putative substrate translocation pore; other site 406425002892 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425002893 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425002894 binding surface 406425002895 TPR motif; other site 406425002896 TPR repeat; Region: TPR_11; pfam13414 406425002897 TPR repeat; Region: TPR_11; pfam13414 406425002898 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425002899 binding surface 406425002900 TPR motif; other site 406425002901 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425002902 TPR motif; other site 406425002903 binding surface 406425002904 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 406425002905 hypothetical protein; Provisional; Region: PRK06184 406425002906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002907 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 406425002908 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 406425002909 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425002910 catalytic loop [active] 406425002911 iron binding site [ion binding]; other site 406425002912 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 406425002913 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 406425002914 [4Fe-4S] binding site [ion binding]; other site 406425002915 molybdopterin cofactor binding site; other site 406425002916 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 406425002917 molybdopterin cofactor binding site; other site 406425002918 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 406425002919 putative dimer interface [polypeptide binding]; other site 406425002920 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 406425002921 SLBB domain; Region: SLBB; pfam10531 406425002922 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 406425002923 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 406425002924 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 406425002925 putative dimer interface [polypeptide binding]; other site 406425002926 [2Fe-2S] cluster binding site [ion binding]; other site 406425002927 Helix-turn-helix domains; Region: HTH; cl00088 406425002928 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 406425002929 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425002930 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425002931 phosphoglycolate phosphatase; Provisional; Region: PRK13222 406425002932 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425002933 motif II; other site 406425002934 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 406425002935 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425002936 S-adenosylmethionine binding site [chemical binding]; other site 406425002937 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425002938 ligand binding site [chemical binding]; other site 406425002939 DNA gyrase subunit A; Validated; Region: PRK05560 406425002940 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 406425002941 CAP-like domain; other site 406425002942 active site 406425002943 primary dimer interface [polypeptide binding]; other site 406425002944 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425002945 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425002946 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425002947 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425002948 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425002949 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425002950 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 406425002951 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 406425002952 homodimer interface [polypeptide binding]; other site 406425002953 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 406425002954 substrate-cofactor binding pocket; other site 406425002955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425002956 catalytic residue [active] 406425002957 Chorismate mutase type II; Region: CM_2; cl00693 406425002958 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 406425002959 Prephenate dehydratase; Region: PDT; pfam00800 406425002960 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 406425002961 putative L-Phe binding site [chemical binding]; other site 406425002962 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 406425002963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002964 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 406425002965 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 406425002966 hinge; other site 406425002967 active site 406425002968 cytidylate kinase; Provisional; Region: cmk; PRK00023 406425002969 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 406425002970 CMP-binding site; other site 406425002971 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 406425002972 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 406425002973 RNA binding site [nucleotide binding]; other site 406425002974 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 406425002975 RNA binding site [nucleotide binding]; other site 406425002976 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 406425002977 RNA binding site [nucleotide binding]; other site 406425002978 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 406425002979 RNA binding site [nucleotide binding]; other site 406425002980 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 406425002981 RNA binding site [nucleotide binding]; other site 406425002982 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 406425002983 RNA binding site [nucleotide binding]; other site 406425002984 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 406425002985 IHF dimer interface [polypeptide binding]; other site 406425002986 IHF - DNA interface [nucleotide binding]; other site 406425002987 tetratricopeptide repeat protein; Provisional; Region: PRK11788 406425002988 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425002989 binding surface 406425002990 TPR motif; other site 406425002991 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 406425002992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002993 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 406425002994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425002995 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 406425002996 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425002997 putative ribose interaction site [chemical binding]; other site 406425002998 putative ADP binding site [chemical binding]; other site 406425002999 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 406425003000 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 406425003001 NADP binding site [chemical binding]; other site 406425003002 homopentamer interface [polypeptide binding]; other site 406425003003 substrate binding site [chemical binding]; other site 406425003004 active site 406425003005 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 406425003006 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 406425003007 cysteine synthase B; Region: cysM; TIGR01138 406425003008 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 406425003009 dimer interface [polypeptide binding]; other site 406425003010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425003011 catalytic residue [active] 406425003012 Transglycosylase SLT domain; Region: SLT_2; pfam13406 406425003013 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425003014 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425003015 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 406425003016 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 406425003017 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 406425003018 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425003019 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 406425003020 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 406425003021 Walker A/P-loop; other site 406425003022 ATP binding site [chemical binding]; other site 406425003023 Q-loop/lid; other site 406425003024 ABC transporter signature motif; other site 406425003025 Walker B; other site 406425003026 D-loop; other site 406425003027 H-loop/switch region; other site 406425003028 NIL domain; Region: NIL; cl09633 406425003029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003030 dimer interface [polypeptide binding]; other site 406425003031 conserved gate region; other site 406425003032 ABC-ATPase subunit interface; other site 406425003033 NMT1-like family; Region: NMT1_2; cl15260 406425003034 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 406425003035 Ligand binding site [chemical binding]; other site 406425003036 Electron transfer flavoprotein domain; Region: ETF; pfam01012 406425003037 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 406425003038 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 406425003039 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 406425003040 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425003041 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425003042 Helix-turn-helix domains; Region: HTH; cl00088 406425003043 AsnC family; Region: AsnC_trans_reg; pfam01037 406425003044 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 406425003045 TM2 domain; Region: TM2; cl00984 406425003046 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 406425003047 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 406425003048 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 406425003049 RimM N-terminal domain; Region: RimM; pfam01782 406425003050 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 406425003051 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 406425003052 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 406425003053 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 406425003054 putative active site [active] 406425003055 putative CoA binding site [chemical binding]; other site 406425003056 nudix motif; other site 406425003057 metal binding site [ion binding]; metal-binding site 406425003058 CobD/Cbib protein; Region: CobD_Cbib; cl00561 406425003059 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 406425003060 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 406425003061 GTPase RsgA; Reviewed; Region: PRK00098 406425003062 RNA binding site [nucleotide binding]; other site 406425003063 homodimer interface [polypeptide binding]; other site 406425003064 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 406425003065 GTPase/Zn-binding domain interface [polypeptide binding]; other site 406425003066 GTP/Mg2+ binding site [chemical binding]; other site 406425003067 G4 box; other site 406425003068 G5 box; other site 406425003069 G1 box; other site 406425003070 Switch I region; other site 406425003071 G2 box; other site 406425003072 G3 box; other site 406425003073 Switch II region; other site 406425003074 Peptidase family M48; Region: Peptidase_M48; cl12018 406425003075 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 406425003076 catalytic site [active] 406425003077 putative active site [active] 406425003078 putative substrate binding site [chemical binding]; other site 406425003079 dimer interface [polypeptide binding]; other site 406425003080 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 406425003081 MPT binding site; other site 406425003082 trimer interface [polypeptide binding]; other site 406425003083 Protein of unknown function (DUF615); Region: DUF615; cl01147 406425003084 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 406425003085 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 406425003086 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 406425003087 folate binding site [chemical binding]; other site 406425003088 NADP+ binding site [chemical binding]; other site 406425003089 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425003090 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425003091 Walker A motif; other site 406425003092 ATP binding site [chemical binding]; other site 406425003093 Walker B motif; other site 406425003094 arginine finger; other site 406425003095 Helix-turn-helix domains; Region: HTH; cl00088 406425003096 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 406425003097 dimerization interface [polypeptide binding]; other site 406425003098 active site 406425003099 FecR protein; Region: FecR; pfam04773 406425003100 large tegument protein UL36; Provisional; Region: PHA03247 406425003101 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425003102 dimerization interface [polypeptide binding]; other site 406425003103 putative DNA binding site [nucleotide binding]; other site 406425003104 putative Zn2+ binding site [ion binding]; other site 406425003105 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 406425003106 fumarate hydratase; Reviewed; Region: fumC; PRK00485 406425003107 Class II fumarases; Region: Fumarase_classII; cd01362 406425003108 active site 406425003109 tetramer interface [polypeptide binding]; other site 406425003110 putative efflux protein, MATE family; Region: matE; TIGR00797 406425003111 MatE; Region: MatE; cl10513 406425003112 MatE; Region: MatE; cl10513 406425003113 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 406425003114 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 406425003115 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 406425003116 AzlC protein; Region: AzlC; cl00570 406425003117 Cupin domain; Region: Cupin_2; cl09118 406425003118 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425003119 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003120 CreA protein; Region: CreA; pfam05981 406425003121 Ferredoxin [Energy production and conversion]; Region: COG1146 406425003122 4Fe-4S binding domain; Region: Fer4; cl02805 406425003123 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 406425003124 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 406425003125 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 406425003126 active site 406425003127 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 406425003128 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 406425003129 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 406425003130 glyoxylate reductase; Reviewed; Region: PRK13243 406425003131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425003132 RmuC family; Region: RmuC; pfam02646 406425003133 putative acetyltransferase; Provisional; Region: PRK03624 406425003134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425003135 Coenzyme A binding pocket [chemical binding]; other site 406425003136 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 406425003137 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425003138 dimer interface [polypeptide binding]; other site 406425003139 putative functional site; other site 406425003140 putative MPT binding site; other site 406425003141 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 406425003142 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 406425003143 GTP binding site; other site 406425003144 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 406425003145 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425003146 FeS/SAM binding site; other site 406425003147 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 406425003148 ribonuclease E; Reviewed; Region: rne; PRK10811 406425003149 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 406425003150 homodimer interface [polypeptide binding]; other site 406425003151 oligonucleotide binding site [chemical binding]; other site 406425003152 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 406425003153 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 406425003154 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 406425003155 active site 406425003156 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425003157 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425003158 motif II; other site 406425003159 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425003160 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 406425003161 iron-sulfur cluster [ion binding]; other site 406425003162 [2Fe-2S] cluster binding site [ion binding]; other site 406425003163 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 406425003164 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 406425003165 tandem repeat interface [polypeptide binding]; other site 406425003166 oligomer interface [polypeptide binding]; other site 406425003167 active site residues [active] 406425003168 Predicted methyltransferases [General function prediction only]; Region: COG0313 406425003169 Maf-like protein; Region: Maf; pfam02545 406425003170 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 406425003171 active site 406425003172 dimer interface [polypeptide binding]; other site 406425003173 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 406425003174 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 406425003175 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 406425003176 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 406425003177 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 406425003178 dimer interface [polypeptide binding]; other site 406425003179 active site 406425003180 CoA binding pocket [chemical binding]; other site 406425003181 Acyl transferase domain; Region: Acyl_transf_1; cl08282 406425003182 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 406425003183 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425003184 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 406425003185 NAD(P) binding site [chemical binding]; other site 406425003186 homotetramer interface [polypeptide binding]; other site 406425003187 homodimer interface [polypeptide binding]; other site 406425003188 active site 406425003189 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425003190 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 406425003191 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 406425003192 dimer interface [polypeptide binding]; other site 406425003193 active site 406425003194 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 406425003195 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425003196 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425003197 DNA binding residues [nucleotide binding] 406425003198 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 406425003199 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 406425003200 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 406425003201 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 406425003202 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 406425003203 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425003204 protein binding site [polypeptide binding]; other site 406425003205 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425003206 protein binding site [polypeptide binding]; other site 406425003207 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425003208 GTP-binding protein LepA; Provisional; Region: PRK05433 406425003209 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 406425003210 G1 box; other site 406425003211 putative GEF interaction site [polypeptide binding]; other site 406425003212 GTP/Mg2+ binding site [chemical binding]; other site 406425003213 Switch I region; other site 406425003214 G2 box; other site 406425003215 G3 box; other site 406425003216 Switch II region; other site 406425003217 G4 box; other site 406425003218 G5 box; other site 406425003219 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 406425003220 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 406425003221 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 406425003222 signal peptidase I; Provisional; Region: PRK10861 406425003223 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 406425003224 Catalytic site [active] 406425003225 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 406425003226 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 406425003227 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 406425003228 dimerization interface [polypeptide binding]; other site 406425003229 active site 406425003230 metal binding site [ion binding]; metal-binding site 406425003231 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 406425003232 GTPase Era; Reviewed; Region: era; PRK00089 406425003233 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 406425003234 G1 box; other site 406425003235 GTP/Mg2+ binding site [chemical binding]; other site 406425003236 Switch I region; other site 406425003237 G2 box; other site 406425003238 Switch II region; other site 406425003239 G3 box; other site 406425003240 G4 box; other site 406425003241 G5 box; other site 406425003242 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 406425003243 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 406425003244 Recombination protein O N terminal; Region: RecO_N; cl15812 406425003245 Recombination protein O C terminal; Region: RecO_C; pfam02565 406425003246 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 406425003247 active site 406425003248 hydrophilic channel; other site 406425003249 dimerization interface [polypeptide binding]; other site 406425003250 catalytic residues [active] 406425003251 active site lid [active] 406425003252 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 406425003253 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 406425003254 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425003255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003256 active site 406425003257 phosphorylation site [posttranslational modification] 406425003258 intermolecular recognition site; other site 406425003259 dimerization interface [polypeptide binding]; other site 406425003260 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425003261 Walker A motif; other site 406425003262 ATP binding site [chemical binding]; other site 406425003263 Walker B motif; other site 406425003264 Helix-turn-helix domains; Region: HTH; cl00088 406425003265 elongation factor P; Validated; Region: PRK00529 406425003266 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 406425003267 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 406425003268 RNA binding site [nucleotide binding]; other site 406425003269 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 406425003270 RNA binding site [nucleotide binding]; other site 406425003271 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 406425003272 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 406425003273 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 406425003274 GIY-YIG motif/motif A; other site 406425003275 active site 406425003276 catalytic site [active] 406425003277 putative DNA binding site [nucleotide binding]; other site 406425003278 metal binding site [ion binding]; metal-binding site 406425003279 UvrB/uvrC motif; Region: UVR; pfam02151 406425003280 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 406425003281 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 406425003282 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 406425003283 Zn binding sites [ion binding]; other site 406425003284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003285 active site 406425003286 phosphorylation site [posttranslational modification] 406425003287 intermolecular recognition site; other site 406425003288 dimerization interface [polypeptide binding]; other site 406425003289 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 406425003290 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 406425003291 Helix-turn-helix domains; Region: HTH; cl00088 406425003292 putative transposase OrfB; Reviewed; Region: PHA02517 406425003293 HTH-like domain; Region: HTH_21; pfam13276 406425003294 Integrase core domain; Region: rve; cl01316 406425003295 Integrase core domain; Region: rve_3; cl15866 406425003296 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425003297 PAAR motif; Region: PAAR_motif; cl15808 406425003298 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425003299 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 406425003300 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425003301 Helix-turn-helix domains; Region: HTH; cl00088 406425003302 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 406425003303 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 406425003304 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425003305 non-specific DNA binding site [nucleotide binding]; other site 406425003306 salt bridge; other site 406425003307 sequence-specific DNA binding site [nucleotide binding]; other site 406425003308 Cupin domain; Region: Cupin_2; cl09118 406425003309 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 406425003310 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 406425003311 active site 406425003312 GAF domain; Region: GAF; cl15785 406425003313 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425003314 Helix-turn-helix domains; Region: HTH; cl00088 406425003315 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 406425003316 putative effector binding pocket; other site 406425003317 putative dimerization interface [polypeptide binding]; other site 406425003318 Pirin-related protein [General function prediction only]; Region: COG1741 406425003319 Cupin domain; Region: Cupin_2; cl09118 406425003320 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425003321 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425003322 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 406425003323 Protein of unknown function (DUF461); Region: DUF461; cl01071 406425003324 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 406425003325 Cu(I) binding site [ion binding]; other site 406425003326 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425003327 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 406425003328 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 406425003329 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 406425003330 active site 406425003331 homotetramer interface [polypeptide binding]; other site 406425003332 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425003333 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425003334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425003335 Walker A/P-loop; other site 406425003336 ATP binding site [chemical binding]; other site 406425003337 Q-loop/lid; other site 406425003338 ABC transporter signature motif; other site 406425003339 Walker B; other site 406425003340 D-loop; other site 406425003341 H-loop/switch region; other site 406425003342 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 406425003343 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425003344 putative ADP-binding pocket [chemical binding]; other site 406425003345 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 406425003346 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 406425003347 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 406425003348 active site 406425003349 tetramer interface [polypeptide binding]; other site 406425003350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425003351 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 406425003352 DNA-binding site [nucleotide binding]; DNA binding site 406425003353 FCD domain; Region: FCD; cl11656 406425003354 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425003355 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425003356 dimerization interface [polypeptide binding]; other site 406425003357 ligand binding site [chemical binding]; other site 406425003358 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425003359 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425003360 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425003361 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425003362 pyridoxamine kinase; Validated; Region: PRK05756 406425003363 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 406425003364 dimer interface [polypeptide binding]; other site 406425003365 pyridoxal binding site [chemical binding]; other site 406425003366 ATP binding site [chemical binding]; other site 406425003367 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425003368 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425003369 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425003370 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 406425003371 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 406425003372 ligand binding site; other site 406425003373 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 406425003374 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 406425003375 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 406425003376 B12 binding site [chemical binding]; other site 406425003377 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425003378 FeS/SAM binding site; other site 406425003379 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 406425003380 putative active site [active] 406425003381 YdjC motif; other site 406425003382 Mg binding site [ion binding]; other site 406425003383 putative homodimer interface [polypeptide binding]; other site 406425003384 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 406425003385 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 406425003386 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 406425003387 Protein of unknown function (DUF497); Region: DUF497; cl01108 406425003388 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425003389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003390 dimer interface [polypeptide binding]; other site 406425003391 conserved gate region; other site 406425003392 putative PBP binding loops; other site 406425003393 ABC-ATPase subunit interface; other site 406425003394 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425003395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003396 dimer interface [polypeptide binding]; other site 406425003397 conserved gate region; other site 406425003398 putative PBP binding loops; other site 406425003399 ABC-ATPase subunit interface; other site 406425003400 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425003401 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425003402 Walker A/P-loop; other site 406425003403 ATP binding site [chemical binding]; other site 406425003404 Q-loop/lid; other site 406425003405 ABC transporter signature motif; other site 406425003406 Walker B; other site 406425003407 D-loop; other site 406425003408 H-loop/switch region; other site 406425003409 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425003410 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425003411 conserved cys residue [active] 406425003412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003414 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 406425003415 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425003416 inhibitor-cofactor binding pocket; inhibition site 406425003417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425003418 catalytic residue [active] 406425003419 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 406425003420 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 406425003421 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425003422 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 406425003423 NAD(P) binding site [chemical binding]; other site 406425003424 catalytic residues [active] 406425003425 Succinylarginine dihydrolase; Region: AstB; cl01511 406425003426 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 406425003427 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 406425003428 active site 406425003429 Zn binding site [ion binding]; other site 406425003430 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425003431 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425003432 substrate binding pocket [chemical binding]; other site 406425003433 membrane-bound complex binding site; other site 406425003434 hinge residues; other site 406425003435 HDOD domain; Region: HDOD; pfam08668 406425003436 PAS domain; Region: PAS_9; pfam13426 406425003437 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425003438 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425003439 metal binding site [ion binding]; metal-binding site 406425003440 active site 406425003441 I-site; other site 406425003442 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425003443 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 406425003444 catalytic triad [active] 406425003445 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 406425003446 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425003447 NAD(P) binding site [chemical binding]; other site 406425003448 putative active site [active] 406425003449 LabA_like proteins; Region: LabA_like/DUF88; cl10034 406425003450 putative metal binding site [ion binding]; other site 406425003451 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 406425003452 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425003453 active site 406425003454 metal binding site [ion binding]; metal-binding site 406425003455 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 406425003456 Protein export membrane protein; Region: SecD_SecF; cl14618 406425003457 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 406425003458 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 406425003459 Protein export membrane protein; Region: SecD_SecF; cl14618 406425003460 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 406425003461 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425003462 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425003463 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425003464 Helix-turn-helix domains; Region: HTH; cl00088 406425003465 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425003466 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 406425003467 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 406425003468 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 406425003469 Predicted transcriptional regulator [Transcription]; Region: COG1959 406425003470 Helix-turn-helix domains; Region: HTH; cl00088 406425003471 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 406425003472 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425003473 NAD binding site [chemical binding]; other site 406425003474 putative active site [active] 406425003475 substrate binding site [chemical binding]; other site 406425003476 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425003477 Helix-turn-helix domains; Region: HTH; cl00088 406425003478 AsnC family; Region: AsnC_trans_reg; pfam01037 406425003479 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 406425003480 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 406425003481 Walker A/P-loop; other site 406425003482 ATP binding site [chemical binding]; other site 406425003483 Q-loop/lid; other site 406425003484 ABC transporter signature motif; other site 406425003485 Walker B; other site 406425003486 D-loop; other site 406425003487 H-loop/switch region; other site 406425003488 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003489 dimer interface [polypeptide binding]; other site 406425003490 conserved gate region; other site 406425003491 putative PBP binding loops; other site 406425003492 ABC-ATPase subunit interface; other site 406425003493 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003494 dimer interface [polypeptide binding]; other site 406425003495 conserved gate region; other site 406425003496 putative PBP binding loops; other site 406425003497 ABC-ATPase subunit interface; other site 406425003498 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425003499 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425003500 putative proline-specific permease; Provisional; Region: proY; PRK10580 406425003501 Spore germination protein; Region: Spore_permease; cl15802 406425003502 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 406425003503 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 406425003504 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 406425003505 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 406425003506 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 406425003507 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 406425003508 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 406425003509 Family description; Region: UvrD_C_2; cl15862 406425003510 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 406425003511 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 406425003512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425003513 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 406425003514 Family description; Region: UvrD_C_2; cl15862 406425003515 RF-1 domain; Region: RF-1; cl02875 406425003516 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425003517 EamA-like transporter family; Region: EamA; cl01037 406425003518 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425003519 EamA-like transporter family; Region: EamA; cl01037 406425003520 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 406425003521 ThiC-associated domain; Region: ThiC-associated; pfam13667 406425003522 ThiC family; Region: ThiC; cl08031 406425003523 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 406425003524 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 406425003525 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425003526 Moco binding site; other site 406425003527 metal coordination site [ion binding]; other site 406425003528 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425003529 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 406425003530 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 406425003531 EamA-like transporter family; Region: EamA; cl01037 406425003532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425003533 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425003534 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425003535 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003536 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 406425003537 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425003538 active site 406425003539 metal binding site [ion binding]; metal-binding site 406425003540 hexamer interface [polypeptide binding]; other site 406425003541 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425003542 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425003543 Walker A/P-loop; other site 406425003544 ATP binding site [chemical binding]; other site 406425003545 Q-loop/lid; other site 406425003546 ABC transporter signature motif; other site 406425003547 Walker B; other site 406425003548 D-loop; other site 406425003549 H-loop/switch region; other site 406425003550 TOBE domain; Region: TOBE_2; cl01440 406425003551 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003552 dimer interface [polypeptide binding]; other site 406425003553 conserved gate region; other site 406425003554 putative PBP binding loops; other site 406425003555 ABC-ATPase subunit interface; other site 406425003556 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425003557 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425003558 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425003559 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425003560 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425003561 DNA binding site [nucleotide binding] 406425003562 domain linker motif; other site 406425003563 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 406425003564 putative dimerization interface [polypeptide binding]; other site 406425003565 putative ligand binding site [chemical binding]; other site 406425003566 oxidoreductase; Provisional; Region: PRK06128 406425003567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425003568 NAD(P) binding site [chemical binding]; other site 406425003569 active site 406425003570 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425003571 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425003572 NAD(P) binding site [chemical binding]; other site 406425003573 DoxX; Region: DoxX; cl00976 406425003574 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425003575 FMN binding site [chemical binding]; other site 406425003576 active site 406425003577 substrate binding site [chemical binding]; other site 406425003578 catalytic residue [active] 406425003579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425003580 Helix-turn-helix domains; Region: HTH; cl00088 406425003581 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425003582 dimerization interface [polypeptide binding]; other site 406425003583 Flavin Reductases; Region: FlaRed; cl00801 406425003584 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 406425003585 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 406425003586 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 406425003587 tetramer interface [polypeptide binding]; other site 406425003588 TPP-binding site [chemical binding]; other site 406425003589 heterodimer interface [polypeptide binding]; other site 406425003590 phosphorylation loop region [posttranslational modification] 406425003591 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 406425003592 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 406425003593 alpha subunit interface [polypeptide binding]; other site 406425003594 TPP binding site [chemical binding]; other site 406425003595 heterodimer interface [polypeptide binding]; other site 406425003596 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425003597 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 406425003598 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425003599 E3 interaction surface; other site 406425003600 lipoyl attachment site [posttranslational modification]; other site 406425003601 e3 binding domain; Region: E3_binding; pfam02817 406425003602 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 406425003603 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 406425003604 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425003605 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425003606 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 406425003607 NAD binding site [chemical binding]; other site 406425003608 active site 406425003609 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425003610 Na binding site [ion binding]; other site 406425003611 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425003612 trimer interface [polypeptide binding]; other site 406425003613 eyelet of channel; other site 406425003614 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425003615 Helix-turn-helix domains; Region: HTH; cl00088 406425003616 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425003617 dimerization interface [polypeptide binding]; other site 406425003618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003619 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425003620 putative substrate translocation pore; other site 406425003621 allantoate amidohydrolase; Reviewed; Region: PRK12893 406425003622 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425003623 active site 406425003624 metal binding site [ion binding]; metal-binding site 406425003625 dimer interface [polypeptide binding]; other site 406425003626 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 406425003627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003628 putative substrate translocation pore; other site 406425003629 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425003630 Helix-turn-helix domains; Region: HTH; cl00088 406425003631 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425003632 dimerization interface [polypeptide binding]; other site 406425003633 substrate binding pocket [chemical binding]; other site 406425003634 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 406425003635 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 406425003636 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425003637 catalytic residue [active] 406425003638 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 406425003639 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 406425003640 Helix-turn-helix domains; Region: HTH; cl00088 406425003641 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425003642 dimerization interface [polypeptide binding]; other site 406425003643 Integral membrane protein TerC family; Region: TerC; cl10468 406425003644 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 406425003645 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425003646 putative dimer interface [polypeptide binding]; other site 406425003647 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425003648 putative dimer interface [polypeptide binding]; other site 406425003649 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 406425003650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425003651 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425003652 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425003653 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 406425003654 Helix-turn-helix domains; Region: HTH; cl00088 406425003655 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425003656 dimerization interface [polypeptide binding]; other site 406425003657 Malonate transporter MadL subunit; Region: MadL; cl04273 406425003658 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 406425003659 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 406425003660 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425003661 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 406425003662 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 406425003663 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 406425003664 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 406425003665 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 406425003666 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 406425003667 Acyl transferase domain; Region: Acyl_transf_1; cl08282 406425003668 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 406425003669 putative active site [active] 406425003670 catalytic site [active] 406425003671 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425003672 active site 406425003673 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 406425003674 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 406425003675 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425003676 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 406425003677 N-terminal domain interface [polypeptide binding]; other site 406425003678 dimer interface [polypeptide binding]; other site 406425003679 substrate binding pocket (H-site) [chemical binding]; other site 406425003680 proline/glycine betaine transporter; Provisional; Region: PRK10642 406425003681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003682 putative substrate translocation pore; other site 406425003683 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 406425003684 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 406425003685 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 406425003686 active site 406425003687 catalytic site [active] 406425003688 substrate binding site [chemical binding]; other site 406425003689 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 406425003690 RNA/DNA hybrid binding site [nucleotide binding]; other site 406425003691 active site 406425003692 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425003693 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425003694 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 406425003695 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 406425003696 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425003697 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425003698 catalytic residue [active] 406425003699 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 406425003700 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 406425003701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425003702 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425003703 putative substrate translocation pore; other site 406425003704 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 406425003705 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 406425003706 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 406425003707 catalytic site [active] 406425003708 subunit interface [polypeptide binding]; other site 406425003709 LysE type translocator; Region: LysE; cl00565 406425003710 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 406425003711 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425003712 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425003713 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 406425003714 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425003715 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425003716 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 406425003717 IMP binding site; other site 406425003718 dimer interface [polypeptide binding]; other site 406425003719 interdomain contacts; other site 406425003720 partial ornithine binding site; other site 406425003721 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 406425003722 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 406425003723 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 406425003724 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 406425003725 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 406425003726 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 406425003727 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425003728 FtsH Extracellular; Region: FtsH_ext; pfam06480 406425003729 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 406425003730 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425003731 Walker A motif; other site 406425003732 ATP binding site [chemical binding]; other site 406425003733 Walker B motif; other site 406425003734 arginine finger; other site 406425003735 Peptidase family M41; Region: Peptidase_M41; pfam01434 406425003736 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 406425003737 dihydropteroate synthase; Region: DHPS; TIGR01496 406425003738 substrate binding pocket [chemical binding]; other site 406425003739 dimer interface [polypeptide binding]; other site 406425003740 inhibitor binding site; inhibition site 406425003741 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 406425003742 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 406425003743 active site 406425003744 substrate binding site [chemical binding]; other site 406425003745 metal binding site [ion binding]; metal-binding site 406425003746 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425003747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003748 dimer interface [polypeptide binding]; other site 406425003749 conserved gate region; other site 406425003750 putative PBP binding loops; other site 406425003751 ABC-ATPase subunit interface; other site 406425003752 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 406425003753 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425003754 dimer interface [polypeptide binding]; other site 406425003755 conserved gate region; other site 406425003756 putative PBP binding loops; other site 406425003757 ABC-ATPase subunit interface; other site 406425003758 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 406425003759 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 406425003760 Walker A/P-loop; other site 406425003761 ATP binding site [chemical binding]; other site 406425003762 Q-loop/lid; other site 406425003763 ABC transporter signature motif; other site 406425003764 Walker B; other site 406425003765 D-loop; other site 406425003766 H-loop/switch region; other site 406425003767 transcriptional regulator PhoU; Provisional; Region: PRK11115 406425003768 PhoU domain; Region: PhoU; pfam01895 406425003769 PhoU domain; Region: PhoU; pfam01895 406425003770 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 406425003771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003772 active site 406425003773 phosphorylation site [posttranslational modification] 406425003774 intermolecular recognition site; other site 406425003775 dimerization interface [polypeptide binding]; other site 406425003776 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425003777 DNA binding site [nucleotide binding] 406425003778 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425003779 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425003780 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425003781 dimer interface [polypeptide binding]; other site 406425003782 phosphorylation site [posttranslational modification] 406425003783 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425003784 ATP binding site [chemical binding]; other site 406425003785 Mg2+ binding site [ion binding]; other site 406425003786 G-X-G motif; other site 406425003787 polyphosphate kinase; Provisional; Region: PRK05443 406425003788 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 406425003789 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 406425003790 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 406425003791 putative active site [active] 406425003792 catalytic site [active] 406425003793 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 406425003794 putative domain interface [polypeptide binding]; other site 406425003795 putative active site [active] 406425003796 catalytic site [active] 406425003797 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 406425003798 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 406425003799 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 406425003800 integrase; Provisional; Region: int; PHA02601 406425003801 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 406425003802 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425003803 active site 406425003804 DNA binding site [nucleotide binding] 406425003805 Int/Topo IB signature motif; other site 406425003806 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 406425003807 AAA domain; Region: AAA_25; pfam13481 406425003808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425003809 ATP binding site [chemical binding]; other site 406425003810 Walker B motif; other site 406425003811 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 406425003812 Phage capsid family; Region: Phage_capsid; pfam05065 406425003813 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 406425003814 Phage-related protein [Function unknown]; Region: COG4695; cl01923 406425003815 Phage portal protein; Region: Phage_portal; pfam04860 406425003816 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 406425003817 Phage terminase, small subunit; Region: Terminase_4; cl01525 406425003818 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 406425003819 Phage Terminase; Region: Terminase_1; pfam03354 406425003820 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 406425003821 oligomerization interface [polypeptide binding]; other site 406425003822 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 406425003823 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425003824 catalytic core [active] 406425003825 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425003826 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 406425003827 MatE; Region: MatE; cl10513 406425003828 MatE; Region: MatE; cl10513 406425003829 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 406425003830 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 406425003831 AMP-binding enzyme; Region: AMP-binding; cl15778 406425003832 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425003833 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425003834 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 406425003835 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 406425003836 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 406425003837 active site 406425003838 catalytic residues [active] 406425003839 Bacitracin resistance protein BacA; Region: BacA; cl00858 406425003840 CheB methylesterase; Region: CheB_methylest; pfam01339 406425003841 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 406425003842 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425003843 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 406425003844 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 406425003845 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425003846 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425003847 putative active site [active] 406425003848 heme pocket [chemical binding]; other site 406425003849 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425003850 dimer interface [polypeptide binding]; other site 406425003851 phosphorylation site [posttranslational modification] 406425003852 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425003853 ATP binding site [chemical binding]; other site 406425003854 Mg2+ binding site [ion binding]; other site 406425003855 G-X-G motif; other site 406425003856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003857 active site 406425003858 phosphorylation site [posttranslational modification] 406425003859 intermolecular recognition site; other site 406425003860 dimerization interface [polypeptide binding]; other site 406425003861 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 406425003862 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425003863 N-terminal plug; other site 406425003864 ligand-binding site [chemical binding]; other site 406425003865 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 406425003866 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425003867 ABC-ATPase subunit interface; other site 406425003868 dimer interface [polypeptide binding]; other site 406425003869 putative PBP binding regions; other site 406425003870 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425003871 ABC-ATPase subunit interface; other site 406425003872 dimer interface [polypeptide binding]; other site 406425003873 putative PBP binding regions; other site 406425003874 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 406425003875 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 406425003876 siderophore binding site; other site 406425003877 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 406425003878 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425003879 Walker A/P-loop; other site 406425003880 ATP binding site [chemical binding]; other site 406425003881 Q-loop/lid; other site 406425003882 ABC transporter signature motif; other site 406425003883 Walker B; other site 406425003884 D-loop; other site 406425003885 H-loop/switch region; other site 406425003886 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 406425003887 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 406425003888 Walker A/P-loop; other site 406425003889 ATP binding site [chemical binding]; other site 406425003890 Q-loop/lid; other site 406425003891 ABC transporter signature motif; other site 406425003892 Walker B; other site 406425003893 D-loop; other site 406425003894 H-loop/switch region; other site 406425003895 Cupin domain; Region: Cupin_2; cl09118 406425003896 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425003897 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425003898 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425003899 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425003900 glutaminase active site [active] 406425003901 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425003902 dimer interface [polypeptide binding]; other site 406425003903 active site 406425003904 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425003905 dimer interface [polypeptide binding]; other site 406425003906 active site 406425003907 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u2; cd10926 406425003908 putative active site [active] 406425003909 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 406425003910 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425003911 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 406425003912 DXD motif; other site 406425003913 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 406425003914 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 406425003915 active site 406425003916 homodimer interface [polypeptide binding]; other site 406425003917 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 406425003918 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425003919 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425003920 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425003921 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425003922 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425003923 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425003924 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 406425003925 intersubunit interface [polypeptide binding]; other site 406425003926 active site 406425003927 Zn2+ binding site [ion binding]; other site 406425003928 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 406425003929 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 406425003930 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425003931 active site 406425003932 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425003933 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425003934 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 406425003935 NAD(P) binding site [chemical binding]; other site 406425003936 Helix-turn-helix domains; Region: HTH; cl00088 406425003937 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 406425003938 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 406425003939 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 406425003940 active site 406425003941 FMN binding site [chemical binding]; other site 406425003942 2,4-decadienoyl-CoA binding site; other site 406425003943 catalytic residue [active] 406425003944 4Fe-4S cluster binding site [ion binding]; other site 406425003945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425003946 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425003947 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425003948 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 406425003949 active site 406425003950 dimer interface [polypeptide binding]; other site 406425003951 metal binding site [ion binding]; metal-binding site 406425003952 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 406425003953 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 406425003954 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 406425003955 dimer interface [polypeptide binding]; other site 406425003956 active site 406425003957 Helix-turn-helix domains; Region: HTH; cl00088 406425003958 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425003959 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425003960 putative effector binding pocket; other site 406425003961 dimerization interface [polypeptide binding]; other site 406425003962 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425003963 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425003964 N-terminal plug; other site 406425003965 ligand-binding site [chemical binding]; other site 406425003966 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 406425003967 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425003968 Walker A/P-loop; other site 406425003969 ATP binding site [chemical binding]; other site 406425003970 Q-loop/lid; other site 406425003971 ABC transporter signature motif; other site 406425003972 Walker B; other site 406425003973 D-loop; other site 406425003974 H-loop/switch region; other site 406425003975 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 406425003976 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 406425003977 putative ligand binding residues [chemical binding]; other site 406425003978 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425003979 ABC-ATPase subunit interface; other site 406425003980 dimer interface [polypeptide binding]; other site 406425003981 putative PBP binding regions; other site 406425003982 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425003983 dimerization interface [polypeptide binding]; other site 406425003984 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 406425003985 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425003986 ATP binding site [chemical binding]; other site 406425003987 Mg2+ binding site [ion binding]; other site 406425003988 G-X-G motif; other site 406425003989 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 406425003990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425003991 active site 406425003992 phosphorylation site [posttranslational modification] 406425003993 intermolecular recognition site; other site 406425003994 dimerization interface [polypeptide binding]; other site 406425003995 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425003996 DNA binding site [nucleotide binding] 406425003997 MltA-interacting protein MipA; Region: MipA; cl01504 406425003998 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425003999 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425004000 catalytic residue [active] 406425004001 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 406425004002 VirB7 interaction site; other site 406425004003 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425004004 trimer interface [polypeptide binding]; other site 406425004005 eyelet of channel; other site 406425004006 RNA polymerase sigma factor; Provisional; Region: PRK12528 406425004007 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425004008 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425004009 DNA binding residues [nucleotide binding] 406425004010 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 406425004011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004012 Helix-turn-helix domains; Region: HTH; cl00088 406425004013 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 406425004014 putative dimerization interface [polypeptide binding]; other site 406425004015 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 406425004016 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425004017 putative metal binding site [ion binding]; other site 406425004018 Flavin Reductases; Region: FlaRed; cl00801 406425004019 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 406425004020 Helix-turn-helix domains; Region: HTH; cl00088 406425004021 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425004022 putative dimerization interface [polypeptide binding]; other site 406425004023 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 406425004024 Citrate transporter; Region: CitMHS; pfam03600 406425004025 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 406425004026 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425004027 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 406425004028 putative active site [active] 406425004029 catalytic triad [active] 406425004030 putative dimer interface [polypeptide binding]; other site 406425004031 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 406425004032 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425004033 putative acyl-acceptor binding pocket; other site 406425004034 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 406425004035 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 406425004036 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425004037 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425004038 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 406425004039 active site 406425004040 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 406425004041 active site 406425004042 catalytic residues [active] 406425004043 GAF domain; Region: GAF_2; pfam13185 406425004044 GAF domain; Region: GAF; cl15785 406425004045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425004046 metal binding site [ion binding]; metal-binding site 406425004047 active site 406425004048 I-site; other site 406425004049 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 406425004050 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 406425004051 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 406425004052 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 406425004053 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 406425004054 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 406425004055 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 406425004056 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 406425004057 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 406425004058 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 406425004059 DXD motif; other site 406425004060 PilZ domain; Region: PilZ; cl01260 406425004061 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 406425004062 Cupin domain; Region: Cupin_2; cl09118 406425004063 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425004064 OsmC-like protein; Region: OsmC; cl00767 406425004065 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 406425004066 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 406425004067 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 406425004068 Isochorismatase family; Region: Isochorismatase; pfam00857 406425004069 catalytic triad [active] 406425004070 dimer interface [polypeptide binding]; other site 406425004071 conserved cis-peptide bond; other site 406425004072 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004073 Helix-turn-helix domains; Region: HTH; cl00088 406425004074 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004075 putative effector binding pocket; other site 406425004076 dimerization interface [polypeptide binding]; other site 406425004077 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 406425004078 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 406425004079 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 406425004080 active site 406425004081 DoxX; Region: DoxX; cl00976 406425004082 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425004083 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 406425004084 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 406425004085 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 406425004086 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425004087 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 406425004088 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 406425004089 nudix motif; other site 406425004090 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 406425004091 nudix motif; other site 406425004092 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 406425004093 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425004094 active site 406425004095 HIGH motif; other site 406425004096 nucleotide binding site [chemical binding]; other site 406425004097 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425004098 active site 406425004099 KMSKS motif; other site 406425004100 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 406425004101 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425004102 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425004103 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425004104 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 406425004105 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 406425004106 motif 1; other site 406425004107 active site 406425004108 motif 2; other site 406425004109 motif 3; other site 406425004110 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 406425004111 DHHA1 domain; Region: DHHA1; pfam02272 406425004112 Helix-turn-helix domains; Region: HTH; cl00088 406425004113 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425004114 dimerization interface [polypeptide binding]; other site 406425004115 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 406425004116 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 406425004117 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 406425004118 nudix motif; other site 406425004119 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425004120 active site 406425004121 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425004122 TM-ABC transporter signature motif; other site 406425004123 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425004124 TM-ABC transporter signature motif; other site 406425004125 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425004126 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425004127 Walker A/P-loop; other site 406425004128 ATP binding site [chemical binding]; other site 406425004129 Q-loop/lid; other site 406425004130 ABC transporter signature motif; other site 406425004131 Walker B; other site 406425004132 D-loop; other site 406425004133 H-loop/switch region; other site 406425004134 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425004135 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425004136 Walker A/P-loop; other site 406425004137 ATP binding site [chemical binding]; other site 406425004138 Q-loop/lid; other site 406425004139 ABC transporter signature motif; other site 406425004140 Walker B; other site 406425004141 D-loop; other site 406425004142 H-loop/switch region; other site 406425004143 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425004144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004145 NAD(P) binding site [chemical binding]; other site 406425004146 active site 406425004147 Domain of unknown function (DUF336); Region: DUF336; cl01249 406425004148 KduI/IolB family; Region: KduI; cl01508 406425004149 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425004150 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 406425004151 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425004152 dimer interface [polypeptide binding]; other site 406425004153 PYR/PP interface [polypeptide binding]; other site 406425004154 TPP binding site [chemical binding]; other site 406425004155 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425004156 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 406425004157 TPP-binding site [chemical binding]; other site 406425004158 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425004159 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425004160 substrate binding site [chemical binding]; other site 406425004161 ATP binding site [chemical binding]; other site 406425004162 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 406425004163 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 406425004164 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425004165 putative ligand binding site [chemical binding]; other site 406425004166 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425004167 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425004168 Walker A/P-loop; other site 406425004169 ATP binding site [chemical binding]; other site 406425004170 Q-loop/lid; other site 406425004171 ABC transporter signature motif; other site 406425004172 Walker B; other site 406425004173 D-loop; other site 406425004174 H-loop/switch region; other site 406425004175 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425004176 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425004177 TM-ABC transporter signature motif; other site 406425004178 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425004179 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 406425004180 DNA interaction; other site 406425004181 Metal-binding active site; metal-binding site 406425004182 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425004183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004184 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 406425004185 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425004186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004187 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 406425004188 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425004189 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425004190 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425004191 putative active site [active] 406425004192 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425004193 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425004194 tetrameric interface [polypeptide binding]; other site 406425004195 NAD binding site [chemical binding]; other site 406425004196 catalytic residues [active] 406425004197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004198 Helix-turn-helix domains; Region: HTH; cl00088 406425004199 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004200 putative effector binding pocket; other site 406425004201 dimerization interface [polypeptide binding]; other site 406425004202 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 406425004203 CPxP motif; other site 406425004204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425004205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425004206 active site 406425004207 phosphorylation site [posttranslational modification] 406425004208 intermolecular recognition site; other site 406425004209 dimerization interface [polypeptide binding]; other site 406425004210 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425004211 DNA binding site [nucleotide binding] 406425004212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 406425004213 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425004214 FecR protein; Region: FecR; pfam04773 406425004215 CHASE2 domain; Region: CHASE2; cl01732 406425004216 sensory histidine kinase AtoS; Provisional; Region: PRK11360 406425004217 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425004218 dimer interface [polypeptide binding]; other site 406425004219 phosphorylation site [posttranslational modification] 406425004220 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425004221 ATP binding site [chemical binding]; other site 406425004222 Mg2+ binding site [ion binding]; other site 406425004223 G-X-G motif; other site 406425004224 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 406425004225 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 406425004226 active site 406425004227 tetramer interface; other site 406425004228 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 406425004229 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 406425004230 HIGH motif; other site 406425004231 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 406425004232 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 406425004233 active site 406425004234 KMSKS motif; other site 406425004235 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 406425004236 tRNA binding surface [nucleotide binding]; other site 406425004237 anticodon binding site; other site 406425004238 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 406425004239 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 406425004240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425004241 Family description; Region: UvrD_C_2; cl15862 406425004242 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 406425004243 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004244 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425004245 putative substrate translocation pore; other site 406425004246 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425004247 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425004248 dimer interface [polypeptide binding]; other site 406425004249 putative CheW interface [polypeptide binding]; other site 406425004250 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 406425004251 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425004252 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425004253 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 406425004254 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425004255 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 406425004256 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425004257 transcriptional regulator; Provisional; Region: PRK10632 406425004258 Helix-turn-helix domains; Region: HTH; cl00088 406425004259 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004260 putative effector binding pocket; other site 406425004261 dimerization interface [polypeptide binding]; other site 406425004262 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 406425004263 putative active site [active] 406425004264 putative metal binding site [ion binding]; other site 406425004265 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425004266 FAD binding domain; Region: FAD_binding_4; pfam01565 406425004267 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 406425004268 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425004269 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 406425004270 Protein of unknown function (DUF962); Region: DUF962; cl01879 406425004271 FOG: CBS domain [General function prediction only]; Region: COG0517 406425004272 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 406425004273 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 406425004274 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425004275 putative acyl-acceptor binding pocket; other site 406425004276 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 406425004277 Tetramer interface [polypeptide binding]; other site 406425004278 active site 406425004279 FMN-binding site [chemical binding]; other site 406425004280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004281 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 406425004282 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 406425004283 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 406425004284 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425004285 classical (c) SDRs; Region: SDR_c; cd05233 406425004286 NAD(P) binding site [chemical binding]; other site 406425004287 active site 406425004288 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425004289 active site 406425004290 PAS domain; Region: PAS_9; pfam13426 406425004291 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425004292 putative active site [active] 406425004293 heme pocket [chemical binding]; other site 406425004294 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425004295 DNA binding residues [nucleotide binding] 406425004296 dimerization interface [polypeptide binding]; other site 406425004297 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425004298 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425004299 short chain dehydrogenase; Provisional; Region: PRK07576 406425004300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004301 NAD(P) binding site [chemical binding]; other site 406425004302 active site 406425004303 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 406425004304 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 406425004305 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425004306 Helix-turn-helix domains; Region: HTH; cl00088 406425004307 transcriptional activator TtdR; Provisional; Region: PRK09801 406425004308 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425004309 putative effector binding pocket; other site 406425004310 dimerization interface [polypeptide binding]; other site 406425004311 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425004312 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425004313 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 406425004314 homotrimer interaction site [polypeptide binding]; other site 406425004315 putative active site [active] 406425004316 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 406425004317 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425004318 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 406425004319 synthetase active site [active] 406425004320 NTP binding site [chemical binding]; other site 406425004321 metal binding site [ion binding]; metal-binding site 406425004322 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 406425004323 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 406425004324 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 406425004325 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 406425004326 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 406425004327 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 406425004328 active site 406425004329 dimer interface [polypeptide binding]; other site 406425004330 motif 1; other site 406425004331 motif 2; other site 406425004332 motif 3; other site 406425004333 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 406425004334 anticodon binding site; other site 406425004335 translation initiation factor IF-3; Region: infC; TIGR00168 406425004336 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 406425004337 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 406425004338 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 406425004339 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 406425004340 23S rRNA binding site [nucleotide binding]; other site 406425004341 L21 binding site [polypeptide binding]; other site 406425004342 L13 binding site [polypeptide binding]; other site 406425004343 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 406425004344 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 406425004345 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 406425004346 dimer interface [polypeptide binding]; other site 406425004347 motif 1; other site 406425004348 active site 406425004349 motif 2; other site 406425004350 motif 3; other site 406425004351 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 406425004352 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 406425004353 putative tRNA-binding site [nucleotide binding]; other site 406425004354 B3/4 domain; Region: B3_4; cl11458 406425004355 tRNA synthetase B5 domain; Region: B5; cl08394 406425004356 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 406425004357 dimer interface [polypeptide binding]; other site 406425004358 motif 1; other site 406425004359 motif 3; other site 406425004360 motif 2; other site 406425004361 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 406425004362 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 406425004363 IHF dimer interface [polypeptide binding]; other site 406425004364 IHF - DNA interface [nucleotide binding]; other site 406425004365 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 406425004366 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425004367 DNA binding residues [nucleotide binding] 406425004368 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425004369 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 406425004370 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 406425004371 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 406425004372 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 406425004373 putative active site [active] 406425004374 DDE superfamily endonuclease; Region: DDE_4; cl15789 406425004375 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 406425004376 Helix-turn-helix domains; Region: HTH; cl00088 406425004377 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425004378 putative dimerization interface [polypeptide binding]; other site 406425004379 aspartate aminotransferase; Provisional; Region: PRK06108 406425004380 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425004381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425004382 homodimer interface [polypeptide binding]; other site 406425004383 catalytic residue [active] 406425004384 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 406425004385 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 406425004386 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425004387 RNA binding surface [nucleotide binding]; other site 406425004388 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 406425004389 probable active site [active] 406425004390 ribosome maturation protein RimP; Reviewed; Region: PRK00092 406425004391 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 406425004392 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 406425004393 Sm1 motif; other site 406425004394 predicted subunit interaction site [polypeptide binding]; other site 406425004395 RNA binding pocket [nucleotide binding]; other site 406425004396 Sm2 motif; other site 406425004397 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 406425004398 NusA N-terminal domain; Region: NusA_N; pfam08529 406425004399 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 406425004400 RNA binding site [nucleotide binding]; other site 406425004401 homodimer interface [polypeptide binding]; other site 406425004402 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 406425004403 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 406425004404 G-X-X-G motif; other site 406425004405 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 406425004406 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 406425004407 translation initiation factor IF-2; Validated; Region: infB; PRK05306 406425004408 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 406425004409 translation initiation factor IF-2; Region: IF-2; TIGR00487 406425004410 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 406425004411 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 406425004412 G1 box; other site 406425004413 putative GEF interaction site [polypeptide binding]; other site 406425004414 GTP/Mg2+ binding site [chemical binding]; other site 406425004415 Switch I region; other site 406425004416 G2 box; other site 406425004417 G3 box; other site 406425004418 Switch II region; other site 406425004419 G4 box; other site 406425004420 G5 box; other site 406425004421 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 406425004422 Translation-initiation factor 2; Region: IF-2; pfam11987 406425004423 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 406425004424 Ribosome-binding factor A; Region: RBFA; cl00542 406425004425 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 406425004426 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 406425004427 RNA binding site [nucleotide binding]; other site 406425004428 active site 406425004429 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 406425004430 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425004431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004432 putative substrate translocation pore; other site 406425004433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004434 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 406425004435 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425004436 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425004437 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425004438 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425004439 Helix-turn-helix domains; Region: HTH; cl00088 406425004440 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 406425004441 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 406425004442 G1 box; other site 406425004443 putative GEF interaction site [polypeptide binding]; other site 406425004444 GTP/Mg2+ binding site [chemical binding]; other site 406425004445 Switch I region; other site 406425004446 G2 box; other site 406425004447 G3 box; other site 406425004448 Switch II region; other site 406425004449 G4 box; other site 406425004450 G5 box; other site 406425004451 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 406425004452 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 406425004453 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 406425004454 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 406425004455 TPP-binding site [chemical binding]; other site 406425004456 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 406425004457 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425004458 E3 interaction surface; other site 406425004459 lipoyl attachment site [posttranslational modification]; other site 406425004460 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 406425004461 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 406425004462 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 406425004463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425004464 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425004465 Predicted ATPase [General function prediction only]; Region: COG1485 406425004466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425004467 Walker A/P-loop; other site 406425004468 ATP binding site [chemical binding]; other site 406425004469 Q-loop/lid; other site 406425004470 Walker B; other site 406425004471 D-loop; other site 406425004472 H-loop/switch region; other site 406425004473 DDE superfamily endonuclease; Region: DDE_4; cl15789 406425004474 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 406425004475 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 406425004476 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425004477 Surface antigen; Region: Bac_surface_Ag; cl03097 406425004478 Flp/Fap pilin component; Region: Flp_Fap; cl01585 406425004479 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 406425004480 TadE-like protein; Region: TadE; cl10688 406425004481 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 406425004482 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 406425004483 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425004484 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 406425004485 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425004486 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 406425004487 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 406425004488 ATP binding site [chemical binding]; other site 406425004489 Walker A motif; other site 406425004490 hexamer interface [polypeptide binding]; other site 406425004491 Walker B motif; other site 406425004492 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425004493 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425004494 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 406425004495 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 406425004496 Predicted membrane protein [Function unknown]; Region: COG4655 406425004497 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 406425004498 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425004499 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425004500 Walker A motif; other site 406425004501 ATP binding site [chemical binding]; other site 406425004502 Walker B motif; other site 406425004503 arginine finger; other site 406425004504 Helix-turn-helix domains; Region: HTH; cl00088 406425004505 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 406425004506 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 406425004507 Sm1 motif; other site 406425004508 D1 - D2 interaction site; other site 406425004509 D3 - B interaction site; other site 406425004510 Hfq - Hfq interaction site; other site 406425004511 RNA binding pocket [nucleotide binding]; other site 406425004512 Sm2 motif; other site 406425004513 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 406425004514 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 406425004515 AMP-binding enzyme; Region: AMP-binding; cl15778 406425004516 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425004517 Helix-turn-helix domains; Region: HTH; cl00088 406425004518 putative sialic acid transporter; Region: 2A0112; TIGR00891 406425004519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004520 putative substrate translocation pore; other site 406425004521 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425004522 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425004523 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 406425004524 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 406425004525 Sulfate transporter family; Region: Sulfate_transp; cl15842 406425004526 Sulfate transporter family; Region: Sulfate_transp; cl15842 406425004527 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 406425004528 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 406425004529 putative substrate binding site [chemical binding]; other site 406425004530 putative ATP binding site [chemical binding]; other site 406425004531 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 406425004532 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425004533 putative ligand binding site [chemical binding]; other site 406425004534 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425004535 TM-ABC transporter signature motif; other site 406425004536 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425004537 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425004538 Walker A/P-loop; other site 406425004539 ATP binding site [chemical binding]; other site 406425004540 Q-loop/lid; other site 406425004541 ABC transporter signature motif; other site 406425004542 Walker B; other site 406425004543 D-loop; other site 406425004544 H-loop/switch region; other site 406425004545 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425004546 Helix-turn-helix domains; Region: HTH; cl00088 406425004547 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 406425004548 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 406425004549 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425004550 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425004551 substrate binding pocket [chemical binding]; other site 406425004552 membrane-bound complex binding site; other site 406425004553 hinge residues; other site 406425004554 ribonuclease R; Region: RNase_R; TIGR02063 406425004555 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 406425004556 RNB domain; Region: RNB; pfam00773 406425004557 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 406425004558 RNA binding site [nucleotide binding]; other site 406425004559 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 406425004560 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 406425004561 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 406425004562 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 406425004563 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 406425004564 amidase catalytic site [active] 406425004565 Zn binding residues [ion binding]; other site 406425004566 substrate binding site [chemical binding]; other site 406425004567 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 406425004568 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 406425004569 tetramer (dimer of dimers) interface [polypeptide binding]; other site 406425004570 active site 406425004571 dimer interface [polypeptide binding]; other site 406425004572 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425004573 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425004574 DNA-binding site [nucleotide binding]; DNA binding site 406425004575 FCD domain; Region: FCD; cl11656 406425004576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004577 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425004578 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425004579 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004580 dimer interface [polypeptide binding]; other site 406425004581 conserved gate region; other site 406425004582 putative PBP binding loops; other site 406425004583 ABC-ATPase subunit interface; other site 406425004584 cystine transporter subunit; Provisional; Region: PRK11260 406425004585 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425004586 substrate binding pocket [chemical binding]; other site 406425004587 membrane-bound complex binding site; other site 406425004588 hinge residues; other site 406425004589 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 406425004590 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 406425004591 active site 406425004592 catalytic residues [active] 406425004593 FMN binding site [chemical binding]; other site 406425004594 quinone interaction residues [chemical binding]; other site 406425004595 substrate binding site [chemical binding]; other site 406425004596 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 406425004597 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 406425004598 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425004599 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425004600 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425004601 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 406425004602 nudix motif; other site 406425004603 Domain of unknown function (DUF336); Region: DUF336; cl01249 406425004604 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 406425004605 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 406425004606 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425004607 substrate binding site [chemical binding]; other site 406425004608 oxyanion hole (OAH) forming residues; other site 406425004609 trimer interface [polypeptide binding]; other site 406425004610 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 406425004611 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 406425004612 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425004613 active site 406425004614 dimer interface [polypeptide binding]; other site 406425004615 non-prolyl cis peptide bond; other site 406425004616 insertion regions; other site 406425004617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004618 dimer interface [polypeptide binding]; other site 406425004619 conserved gate region; other site 406425004620 putative PBP binding loops; other site 406425004621 ABC-ATPase subunit interface; other site 406425004622 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 406425004623 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425004624 Walker A/P-loop; other site 406425004625 ATP binding site [chemical binding]; other site 406425004626 Q-loop/lid; other site 406425004627 ABC transporter signature motif; other site 406425004628 Walker B; other site 406425004629 D-loop; other site 406425004630 H-loop/switch region; other site 406425004631 TOBE domain; Region: TOBE_2; cl01440 406425004632 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 406425004633 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 406425004634 FMN binding site [chemical binding]; other site 406425004635 active site 406425004636 catalytic residues [active] 406425004637 substrate binding site [chemical binding]; other site 406425004638 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425004639 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 406425004640 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004641 dimerization interface [polypeptide binding]; other site 406425004642 mannose binding site [chemical binding]; other site 406425004643 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 406425004644 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004645 dimerization interface [polypeptide binding]; other site 406425004646 mannose binding site [chemical binding]; other site 406425004647 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004648 dimerization interface [polypeptide binding]; other site 406425004649 mannose binding site [chemical binding]; other site 406425004650 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 406425004651 dimerization interface [polypeptide binding]; other site 406425004652 mannose binding site [chemical binding]; other site 406425004653 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425004654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425004655 Coenzyme A binding pocket [chemical binding]; other site 406425004656 Family of unknown function (DUF695); Region: DUF695; pfam05117 406425004657 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 406425004658 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 406425004659 putative dimer interface [polypeptide binding]; other site 406425004660 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 406425004661 PLD-like domain; Region: PLDc_2; pfam13091 406425004662 putative active site [active] 406425004663 catalytic site [active] 406425004664 Helix-turn-helix domains; Region: HTH; cl00088 406425004665 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425004666 CoenzymeA binding site [chemical binding]; other site 406425004667 subunit interaction site [polypeptide binding]; other site 406425004668 PHB binding site; other site 406425004669 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425004670 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425004671 active site 406425004672 catalytic tetrad [active] 406425004673 citrate-proton symporter; Provisional; Region: PRK15075 406425004674 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004675 putative substrate translocation pore; other site 406425004676 hypothetical protein; Provisional; Region: PRK07079 406425004677 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 406425004678 metal binding site [ion binding]; metal-binding site 406425004679 putative dimer interface [polypeptide binding]; other site 406425004680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425004681 Helix-turn-helix domains; Region: HTH; cl00088 406425004682 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425004683 dimerization interface [polypeptide binding]; other site 406425004684 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 406425004685 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425004686 active site residue [active] 406425004687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425004688 Predicted permease; Region: DUF318; pfam03773 406425004689 Predicted permeases [General function prediction only]; Region: COG0701 406425004690 ABC-2 type transporter; Region: ABC2_membrane; cl11417 406425004691 nodulation ABC transporter NodI; Provisional; Region: PRK13537 406425004692 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 406425004693 Walker A/P-loop; other site 406425004694 ATP binding site [chemical binding]; other site 406425004695 Q-loop/lid; other site 406425004696 ABC transporter signature motif; other site 406425004697 Walker B; other site 406425004698 D-loop; other site 406425004699 H-loop/switch region; other site 406425004700 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425004701 Ligand Binding Site [chemical binding]; other site 406425004702 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 406425004703 LexA repressor; Validated; Region: PRK00215 406425004704 Helix-turn-helix domains; Region: HTH; cl00088 406425004705 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 406425004706 Catalytic site [active] 406425004707 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425004708 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425004709 sulfate transport protein; Provisional; Region: cysT; CHL00187 406425004710 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004711 dimer interface [polypeptide binding]; other site 406425004712 conserved gate region; other site 406425004713 putative PBP binding loops; other site 406425004714 ABC-ATPase subunit interface; other site 406425004715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004716 dimer interface [polypeptide binding]; other site 406425004717 conserved gate region; other site 406425004718 putative PBP binding loops; other site 406425004719 ABC-ATPase subunit interface; other site 406425004720 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 406425004721 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 406425004722 Walker A/P-loop; other site 406425004723 ATP binding site [chemical binding]; other site 406425004724 Q-loop/lid; other site 406425004725 ABC transporter signature motif; other site 406425004726 Walker B; other site 406425004727 D-loop; other site 406425004728 H-loop/switch region; other site 406425004729 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 406425004730 Helix-turn-helix domains; Region: HTH; cl00088 406425004731 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 406425004732 substrate binding site [chemical binding]; other site 406425004733 dimerization interface [polypeptide binding]; other site 406425004734 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 406425004735 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425004736 ligand binding site [chemical binding]; other site 406425004737 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425004738 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425004739 Walker A/P-loop; other site 406425004740 ATP binding site [chemical binding]; other site 406425004741 Q-loop/lid; other site 406425004742 ABC transporter signature motif; other site 406425004743 Walker B; other site 406425004744 D-loop; other site 406425004745 H-loop/switch region; other site 406425004746 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425004747 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 406425004748 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425004749 TM-ABC transporter signature motif; other site 406425004750 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425004751 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425004752 DNA binding site [nucleotide binding] 406425004753 domain linker motif; other site 406425004754 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425004755 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 406425004756 substrate binding site [chemical binding]; other site 406425004757 dimer interface [polypeptide binding]; other site 406425004758 ATP binding site [chemical binding]; other site 406425004759 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 406425004760 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425004761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425004762 dimer interface [polypeptide binding]; other site 406425004763 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 406425004764 putative CheW interface [polypeptide binding]; other site 406425004765 PrkA family serine protein kinase; Provisional; Region: PRK15455 406425004766 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425004767 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 406425004768 Uncharacterized conserved protein [Function unknown]; Region: COG2718 406425004769 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 406425004770 SpoVR family protein; Provisional; Region: PRK11767 406425004771 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 406425004772 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 406425004773 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004774 putative substrate translocation pore; other site 406425004775 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425004776 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425004777 substrate binding pocket [chemical binding]; other site 406425004778 membrane-bound complex binding site; other site 406425004779 hinge residues; other site 406425004780 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004781 dimer interface [polypeptide binding]; other site 406425004782 conserved gate region; other site 406425004783 putative PBP binding loops; other site 406425004784 ABC-ATPase subunit interface; other site 406425004785 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004786 dimer interface [polypeptide binding]; other site 406425004787 conserved gate region; other site 406425004788 putative PBP binding loops; other site 406425004789 ABC-ATPase subunit interface; other site 406425004790 Peptidase family M23; Region: Peptidase_M23; pfam01551 406425004791 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 406425004792 Helix-turn-helix domains; Region: HTH; cl00088 406425004793 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 406425004794 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 406425004795 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425004796 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425004797 multidrug efflux protein; Reviewed; Region: PRK09577 406425004798 Protein export membrane protein; Region: SecD_SecF; cl14618 406425004799 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 406425004800 Fimbrial protein; Region: Fimbrial; cl01416 406425004801 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 406425004802 PapC N-terminal domain; Region: PapC_N; pfam13954 406425004803 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 406425004804 PapC C-terminal domain; Region: PapC_C; pfam13953 406425004805 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 406425004806 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 406425004807 Fimbrial protein; Region: Fimbrial; cl01416 406425004808 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 406425004809 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425004810 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425004811 MbtH-like protein; Region: MbtH; cl01279 406425004812 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425004813 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 406425004814 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425004815 Walker A/P-loop; other site 406425004816 ATP binding site [chemical binding]; other site 406425004817 Q-loop/lid; other site 406425004818 ABC transporter signature motif; other site 406425004819 Walker B; other site 406425004820 D-loop; other site 406425004821 H-loop/switch region; other site 406425004822 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 406425004823 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 406425004824 ABC-ATPase subunit interface; other site 406425004825 dimer interface [polypeptide binding]; other site 406425004826 putative PBP binding regions; other site 406425004827 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425004828 ABC-ATPase subunit interface; other site 406425004829 dimer interface [polypeptide binding]; other site 406425004830 putative PBP binding regions; other site 406425004831 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 406425004832 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 406425004833 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 406425004834 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 406425004835 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 406425004836 siderophore binding site; other site 406425004837 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 406425004838 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 406425004839 Walker A/P-loop; other site 406425004840 ATP binding site [chemical binding]; other site 406425004841 Q-loop/lid; other site 406425004842 ABC transporter signature motif; other site 406425004843 Walker B; other site 406425004844 D-loop; other site 406425004845 H-loop/switch region; other site 406425004846 peptide synthase; Provisional; Region: PRK12467 406425004847 AMP-binding enzyme; Region: AMP-binding; cl15778 406425004848 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425004849 peptide synthase; Provisional; Region: PRK12316 406425004850 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 406425004851 AMP-binding enzyme; Region: AMP-binding; cl15778 406425004852 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425004853 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 406425004854 AMP-binding enzyme; Region: AMP-binding; cl15778 406425004855 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425004856 peptide synthase; Provisional; Region: PRK12467 406425004857 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 406425004858 AMP-binding enzyme; Region: AMP-binding; cl15778 406425004859 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425004860 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 406425004861 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425004862 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 406425004863 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 406425004864 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 406425004865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004866 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 406425004867 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425004868 N-terminal plug; other site 406425004869 ligand-binding site [chemical binding]; other site 406425004870 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 406425004871 catalytic site [active] 406425004872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 406425004873 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 406425004874 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 406425004875 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 406425004876 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425004877 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425004878 metal binding site [ion binding]; metal-binding site 406425004879 putative dimer interface [polypeptide binding]; other site 406425004880 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 406425004881 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 406425004882 catalytic triad [active] 406425004883 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 406425004884 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 406425004885 homodimer interface [polypeptide binding]; other site 406425004886 Walker A motif; other site 406425004887 ATP binding site [chemical binding]; other site 406425004888 hydroxycobalamin binding site [chemical binding]; other site 406425004889 Walker B motif; other site 406425004890 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 406425004891 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425004892 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 406425004893 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425004894 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425004895 N-terminal plug; other site 406425004896 ligand-binding site [chemical binding]; other site 406425004897 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 406425004898 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425004899 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 406425004900 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 406425004901 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 406425004902 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 406425004903 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 406425004904 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425004905 Walker A motif; other site 406425004906 ATP binding site [chemical binding]; other site 406425004907 Walker B motif; other site 406425004908 arginine finger; other site 406425004909 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 406425004910 metal ion-dependent adhesion site (MIDAS); other site 406425004911 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 406425004912 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425004913 binding surface 406425004914 TPR motif; other site 406425004915 Tetratricopeptide repeat; Region: TPR_12; pfam13424 406425004916 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425004917 binding surface 406425004918 TPR motif; other site 406425004919 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425004920 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425004921 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 406425004922 Low molecular weight phosphatase family; Region: LMWPc; cl00105 406425004923 active site 406425004924 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425004925 nudix motif; other site 406425004926 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425004927 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425004928 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 406425004929 Citrate transporter; Region: CitMHS; pfam03600 406425004930 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425004931 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425004932 active site 406425004933 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425004934 Helix-turn-helix domains; Region: HTH; cl00088 406425004935 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425004936 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 406425004937 active site 406425004938 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 406425004939 chitin/cellulose binding site [chemical binding]; other site 406425004940 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 406425004941 chitin/cellulose binding site [chemical binding]; other site 406425004942 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 406425004943 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 406425004944 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425004945 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425004946 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 406425004947 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 406425004948 precorrin-3B synthase; Region: CobG; TIGR02435 406425004949 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425004950 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425004951 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425004952 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 406425004953 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425004954 CbiD; Region: CbiD; cl00828 406425004955 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 406425004956 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425004957 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 406425004958 putative cyanate transporter; Provisional; Region: cynX; PRK09705 406425004959 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425004960 putative substrate translocation pore; other site 406425004961 Helix-turn-helix domains; Region: HTH; cl00088 406425004962 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425004963 voltage-gated potassium channel; Provisional; Region: PRK10537 406425004964 Ion channel; Region: Ion_trans_2; cl11596 406425004965 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 406425004966 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425004967 C-terminal domain interface [polypeptide binding]; other site 406425004968 GSH binding site (G-site) [chemical binding]; other site 406425004969 dimer interface [polypeptide binding]; other site 406425004970 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 406425004971 dimer interface [polypeptide binding]; other site 406425004972 N-terminal domain interface [polypeptide binding]; other site 406425004973 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 406425004974 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425004975 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425004976 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425004977 Walker A/P-loop; other site 406425004978 ATP binding site [chemical binding]; other site 406425004979 Q-loop/lid; other site 406425004980 ABC transporter signature motif; other site 406425004981 Walker B; other site 406425004982 D-loop; other site 406425004983 H-loop/switch region; other site 406425004984 TOBE domain; Region: TOBE_2; cl01440 406425004985 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 406425004986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004987 dimer interface [polypeptide binding]; other site 406425004988 conserved gate region; other site 406425004989 putative PBP binding loops; other site 406425004990 ABC-ATPase subunit interface; other site 406425004991 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425004992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425004993 dimer interface [polypeptide binding]; other site 406425004994 conserved gate region; other site 406425004995 putative PBP binding loops; other site 406425004996 ABC-ATPase subunit interface; other site 406425004997 glycerate dehydrogenase; Provisional; Region: PRK06487 406425004998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425004999 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425005000 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425005001 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 406425005002 active site 406425005003 catalytic residues [active] 406425005004 metal binding site [ion binding]; metal-binding site 406425005005 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 406425005006 dimer interface [polypeptide binding]; other site 406425005007 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425005008 metal binding site [ion binding]; metal-binding site 406425005009 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 406425005010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425005011 Helix-turn-helix domains; Region: HTH; cl00088 406425005012 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 406425005013 putative dimerization interface [polypeptide binding]; other site 406425005014 benzoate transport; Region: 2A0115; TIGR00895 406425005015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005016 putative substrate translocation pore; other site 406425005017 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005018 putative substrate translocation pore; other site 406425005019 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 406425005020 Helix-turn-helix domains; Region: HTH; cl00088 406425005021 Predicted acetyltransferase [General function prediction only]; Region: COG3393 406425005022 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425005023 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425005024 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425005025 OsmC-like protein; Region: OsmC; cl00767 406425005026 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425005027 Helix-turn-helix domains; Region: HTH; cl00088 406425005028 Winged helix-turn helix; Region: HTH_29; pfam13551 406425005029 Helix-turn-helix domains; Region: HTH; cl00088 406425005030 Integrase core domain; Region: rve; cl01316 406425005031 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425005032 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425005033 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425005034 ligand binding site [chemical binding]; other site 406425005035 flexible hinge region; other site 406425005036 Helix-turn-helix domains; Region: HTH; cl00088 406425005037 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 406425005038 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425005039 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425005040 ligand binding site [chemical binding]; other site 406425005041 flexible hinge region; other site 406425005042 Helix-turn-helix domains; Region: HTH; cl00088 406425005043 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 406425005044 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 406425005045 CsbD-like; Region: CsbD; cl15799 406425005046 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 406425005047 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 406425005048 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425005049 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425005050 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425005051 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425005052 ligand binding site [chemical binding]; other site 406425005053 flexible hinge region; other site 406425005054 Helix-turn-helix domains; Region: HTH; cl00088 406425005055 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 406425005056 PEP-CTERM family integral membrane protein; Region: PEP_integral; TIGR02921 406425005057 transketolase; Reviewed; Region: PRK05899 406425005058 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425005059 TPP-binding site [chemical binding]; other site 406425005060 dimer interface [polypeptide binding]; other site 406425005061 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425005062 PYR/PP interface [polypeptide binding]; other site 406425005063 dimer interface [polypeptide binding]; other site 406425005064 TPP binding site [chemical binding]; other site 406425005065 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425005066 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 406425005067 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425005068 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 406425005069 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425005070 CsbD-like; Region: CsbD; cl15799 406425005071 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 406425005072 Di-iron ligands [ion binding]; other site 406425005073 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 406425005074 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 406425005075 Putative glucoamylase; Region: Glycoamylase; pfam10091 406425005076 Putative carbohydrate binding domain; Region: CBM_X; cl05621 406425005077 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 406425005078 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 406425005079 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 406425005080 Putative carbohydrate binding domain; Region: CBM_X; cl05621 406425005081 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 406425005082 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 406425005083 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425005084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425005085 Helix-turn-helix domains; Region: HTH; cl00088 406425005086 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425005087 putative effector binding pocket; other site 406425005088 putative dimerization interface [polypeptide binding]; other site 406425005089 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425005090 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425005091 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425005092 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425005093 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425005094 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425005095 Protein export membrane protein; Region: SecD_SecF; cl14618 406425005096 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 406425005097 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425005098 Walker A/P-loop; other site 406425005099 ATP binding site [chemical binding]; other site 406425005100 Q-loop/lid; other site 406425005101 ABC transporter signature motif; other site 406425005102 Walker B; other site 406425005103 D-loop; other site 406425005104 H-loop/switch region; other site 406425005105 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425005106 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425005107 Walker A/P-loop; other site 406425005108 ATP binding site [chemical binding]; other site 406425005109 Q-loop/lid; other site 406425005110 ABC transporter signature motif; other site 406425005111 Walker B; other site 406425005112 D-loop; other site 406425005113 H-loop/switch region; other site 406425005114 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425005115 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 406425005116 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425005117 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005118 dimer interface [polypeptide binding]; other site 406425005119 conserved gate region; other site 406425005120 putative PBP binding loops; other site 406425005121 ABC-ATPase subunit interface; other site 406425005122 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 406425005123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005124 dimer interface [polypeptide binding]; other site 406425005125 conserved gate region; other site 406425005126 putative PBP binding loops; other site 406425005127 ABC-ATPase subunit interface; other site 406425005128 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 406425005129 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 406425005130 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425005131 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425005132 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 406425005133 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425005134 non-specific DNA binding site [nucleotide binding]; other site 406425005135 salt bridge; other site 406425005136 sequence-specific DNA binding site [nucleotide binding]; other site 406425005137 Cupin domain; Region: Cupin_2; cl09118 406425005138 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 406425005139 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 406425005140 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425005141 Gram-negative bacterial tonB protein; Region: TonB; cl10048 406425005142 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 406425005143 putative deacylase active site [active] 406425005144 YCII-related domain; Region: YCII; cl00999 406425005145 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 406425005146 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 406425005147 AAA domain; Region: AAA_33; pfam13671 406425005148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005149 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 406425005150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005151 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425005152 AsnC family; Region: AsnC_trans_reg; pfam01037 406425005153 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 406425005154 PGDYG protein; Region: PGDYG; pfam14083 406425005155 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 406425005156 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 406425005157 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425005158 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425005159 DNA binding site [nucleotide binding] 406425005160 domain linker motif; other site 406425005161 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 406425005162 putative ligand binding site [chemical binding]; other site 406425005163 putative dimerization interface [polypeptide binding]; other site 406425005164 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 406425005165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005166 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005167 D-galactonate transporter; Region: 2A0114; TIGR00893 406425005168 putative substrate translocation pore; other site 406425005169 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425005170 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425005171 substrate binding site [chemical binding]; other site 406425005172 ATP binding site [chemical binding]; other site 406425005173 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 406425005174 Helix-turn-helix domains; Region: HTH; cl00088 406425005175 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 406425005176 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 406425005177 putative dimerization interface [polypeptide binding]; other site 406425005178 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 406425005179 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 406425005180 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 406425005181 Cl- selectivity filter; other site 406425005182 Cl- binding residues [ion binding]; other site 406425005183 pore gating glutamate residue; other site 406425005184 dimer interface [polypeptide binding]; other site 406425005185 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 406425005186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425005187 Helix-turn-helix domains; Region: HTH; cl00088 406425005188 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425005189 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425005190 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425005191 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425005192 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425005193 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 406425005194 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425005195 DNA binding residues [nucleotide binding] 406425005196 putative dimer interface [polypeptide binding]; other site 406425005197 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 406425005198 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 406425005199 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425005200 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 406425005201 PAS fold; Region: PAS_4; pfam08448 406425005202 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425005203 putative active site [active] 406425005204 heme pocket [chemical binding]; other site 406425005205 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005206 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425005207 Walker A motif; other site 406425005208 ATP binding site [chemical binding]; other site 406425005209 Walker B motif; other site 406425005210 arginine finger; other site 406425005211 Helix-turn-helix domains; Region: HTH; cl00088 406425005212 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425005213 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 406425005214 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 406425005215 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425005216 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005217 dimer interface [polypeptide binding]; other site 406425005218 conserved gate region; other site 406425005219 putative PBP binding loops; other site 406425005220 ABC-ATPase subunit interface; other site 406425005221 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 406425005222 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425005223 dimer interface [polypeptide binding]; other site 406425005224 conserved gate region; other site 406425005225 putative PBP binding loops; other site 406425005226 ABC-ATPase subunit interface; other site 406425005227 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 406425005228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005229 Walker A/P-loop; other site 406425005230 ATP binding site [chemical binding]; other site 406425005231 Q-loop/lid; other site 406425005232 ABC transporter signature motif; other site 406425005233 Walker B; other site 406425005234 D-loop; other site 406425005235 H-loop/switch region; other site 406425005236 TOBE domain; Region: TOBE_2; cl01440 406425005237 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 406425005238 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425005239 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 406425005240 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425005241 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 406425005242 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425005243 FMN binding site [chemical binding]; other site 406425005244 substrate binding site [chemical binding]; other site 406425005245 putative catalytic residue [active] 406425005246 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 406425005247 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425005248 NAD binding site [chemical binding]; other site 406425005249 catalytic residues [active] 406425005250 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 406425005251 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 406425005252 NodB motif; other site 406425005253 active site 406425005254 catalytic site [active] 406425005255 metal binding site [ion binding]; metal-binding site 406425005256 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425005257 active site 406425005258 substrate binding site [chemical binding]; other site 406425005259 ATP binding site [chemical binding]; other site 406425005260 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425005261 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 406425005262 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 406425005263 active site 406425005264 TDP-binding site; other site 406425005265 acceptor substrate-binding pocket; other site 406425005266 homodimer interface [polypeptide binding]; other site 406425005267 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 406425005268 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425005269 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425005270 FeS/SAM binding site; other site 406425005271 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425005272 substrate binding site [chemical binding]; other site 406425005273 Helix-turn-helix domains; Region: HTH; cl00088 406425005274 HTH-like domain; Region: HTH_21; pfam13276 406425005275 Integrase core domain; Region: rve; cl01316 406425005276 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425005277 MULE transposase domain; Region: MULE; pfam10551 406425005278 Uncharacterized conserved protein (DUF2290); Region: DUF2290; cl02396 406425005279 Helix-turn-helix domains; Region: HTH; cl00088 406425005280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 406425005281 IS2 transposase TnpB; Reviewed; Region: PRK09409 406425005282 HTH-like domain; Region: HTH_21; pfam13276 406425005283 Integrase core domain; Region: rve; cl01316 406425005284 Integrase core domain; Region: rve_3; cl15866 406425005285 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425005286 MULE transposase domain; Region: MULE; pfam10551 406425005287 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 406425005288 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425005289 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425005290 ABC transporter; Region: ABC_tran_2; pfam12848 406425005291 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425005292 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 406425005293 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 406425005294 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 406425005295 AsmA-like C-terminal region; Region: AsmA_2; cl15864 406425005296 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 406425005297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005298 Walker A/P-loop; other site 406425005299 ATP binding site [chemical binding]; other site 406425005300 Q-loop/lid; other site 406425005301 ABC transporter signature motif; other site 406425005302 Walker B; other site 406425005303 D-loop; other site 406425005304 H-loop/switch region; other site 406425005305 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 406425005306 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 406425005307 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 406425005308 putative NAD(P) binding site [chemical binding]; other site 406425005309 dimer interface [polypeptide binding]; other site 406425005310 transcriptional activator TtdR; Provisional; Region: PRK09801 406425005311 Helix-turn-helix domains; Region: HTH; cl00088 406425005312 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425005313 putative effector binding pocket; other site 406425005314 dimerization interface [polypeptide binding]; other site 406425005315 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 406425005316 phosphoserine phosphatase SerB; Region: serB; TIGR00338 406425005317 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425005318 motif II; other site 406425005319 cystathionine beta-lyase; Provisional; Region: PRK07050 406425005320 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425005321 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425005322 catalytic residue [active] 406425005323 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425005324 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425005325 substrate binding site [chemical binding]; other site 406425005326 ATP binding site [chemical binding]; other site 406425005327 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 406425005328 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 406425005329 TRAM domain; Region: TRAM; cl01282 406425005330 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425005331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 406425005332 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 406425005333 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 406425005334 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 406425005335 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 406425005336 NAD(P) binding site [chemical binding]; other site 406425005337 homotetramer interface [polypeptide binding]; other site 406425005338 homodimer interface [polypeptide binding]; other site 406425005339 active site 406425005340 putative acyltransferase; Provisional; Region: PRK05790 406425005341 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425005342 dimer interface [polypeptide binding]; other site 406425005343 active site 406425005344 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 406425005345 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 406425005346 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 406425005347 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 406425005348 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 406425005349 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425005350 RNA binding surface [nucleotide binding]; other site 406425005351 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 406425005352 active site 406425005353 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 406425005354 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 406425005355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005357 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 406425005358 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 406425005359 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 406425005360 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 406425005361 RNA binding site [nucleotide binding]; other site 406425005362 K+ potassium transporter; Region: K_trans; cl15781 406425005363 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425005364 active site 406425005365 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 406425005366 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 406425005367 GDP-binding site [chemical binding]; other site 406425005368 ACT binding site; other site 406425005369 IMP binding site; other site 406425005370 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 406425005371 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 406425005372 dimer interface [polypeptide binding]; other site 406425005373 motif 1; other site 406425005374 active site 406425005375 motif 2; other site 406425005376 motif 3; other site 406425005377 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 406425005378 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 406425005379 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 406425005380 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 406425005381 HflK protein; Region: hflK; TIGR01933 406425005382 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 406425005383 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 406425005384 HflX GTPase family; Region: HflX; cd01878 406425005385 G1 box; other site 406425005386 GTP/Mg2+ binding site [chemical binding]; other site 406425005387 Switch I region; other site 406425005388 G2 box; other site 406425005389 G3 box; other site 406425005390 Switch II region; other site 406425005391 G4 box; other site 406425005392 G5 box; other site 406425005393 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 406425005394 Sm1 motif; other site 406425005395 intra - hexamer interaction site; other site 406425005396 inter - hexamer interaction site [polypeptide binding]; other site 406425005397 nucleotide binding pocket [chemical binding]; other site 406425005398 Sm2 motif; other site 406425005399 GTP-binding protein Der; Reviewed; Region: PRK00093 406425005400 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 406425005401 G1 box; other site 406425005402 GTP/Mg2+ binding site [chemical binding]; other site 406425005403 Switch I region; other site 406425005404 G2 box; other site 406425005405 Switch II region; other site 406425005406 G3 box; other site 406425005407 G4 box; other site 406425005408 G5 box; other site 406425005409 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 406425005410 G1 box; other site 406425005411 GTP/Mg2+ binding site [chemical binding]; other site 406425005412 Switch I region; other site 406425005413 G2 box; other site 406425005414 G3 box; other site 406425005415 Switch II region; other site 406425005416 G4 box; other site 406425005417 G5 box; other site 406425005418 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 406425005419 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 406425005420 Trp docking motif [polypeptide binding]; other site 406425005421 active site 406425005422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 406425005423 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 406425005424 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 406425005425 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 406425005426 dimer interface [polypeptide binding]; other site 406425005427 motif 1; other site 406425005428 active site 406425005429 motif 2; other site 406425005430 motif 3; other site 406425005431 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 406425005432 anticodon binding site; other site 406425005433 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 406425005434 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 406425005435 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 406425005436 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425005437 non-specific DNA binding site [nucleotide binding]; other site 406425005438 salt bridge; other site 406425005439 sequence-specific DNA binding site [nucleotide binding]; other site 406425005440 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 406425005441 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 406425005442 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425005443 FeS/SAM binding site; other site 406425005444 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 406425005445 active site 406425005446 multimer interface [polypeptide binding]; other site 406425005447 YccA-like proteins; Region: YccA_like; cd10433 406425005448 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 406425005449 TRAM domain; Region: TRAM; cl01282 406425005450 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425005451 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 406425005452 putative catalytic site [active] 406425005453 putative metal binding site [ion binding]; other site 406425005454 putative phosphate binding site [ion binding]; other site 406425005455 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 406425005456 putative catalytic site [active] 406425005457 putative phosphate binding site [ion binding]; other site 406425005458 putative metal binding site [ion binding]; other site 406425005459 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 406425005460 active site 406425005461 catalytic site [active] 406425005462 substrate binding site [chemical binding]; other site 406425005463 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 406425005464 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 406425005465 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425005466 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425005467 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425005468 DNA binding residues [nucleotide binding] 406425005469 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425005470 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 406425005471 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 406425005472 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425005473 S-adenosylmethionine binding site [chemical binding]; other site 406425005474 Survival protein SurE; Region: SurE; cl00448 406425005475 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425005476 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425005477 recombination protein RecR; Reviewed; Region: recR; PRK00076 406425005478 RecR protein; Region: RecR; pfam02132 406425005479 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 406425005480 putative active site [active] 406425005481 putative metal-binding site [ion binding]; other site 406425005482 tetramer interface [polypeptide binding]; other site 406425005483 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 406425005484 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 406425005485 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005486 Walker A motif; other site 406425005487 ATP binding site [chemical binding]; other site 406425005488 Walker B motif; other site 406425005489 arginine finger; other site 406425005490 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 406425005491 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 406425005492 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425005493 catalytic residues [active] 406425005494 transcription termination factor Rho; Provisional; Region: rho; PRK09376 406425005495 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 406425005496 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 406425005497 RNA binding site [nucleotide binding]; other site 406425005498 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 406425005499 multimer interface [polypeptide binding]; other site 406425005500 Walker A motif; other site 406425005501 ATP binding site [chemical binding]; other site 406425005502 Walker B motif; other site 406425005503 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 406425005504 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425005505 DNA binding residues [nucleotide binding] 406425005506 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005507 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425005508 putative substrate translocation pore; other site 406425005509 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 406425005510 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 406425005511 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425005512 multidrug efflux protein; Reviewed; Region: PRK01766 406425005513 MatE; Region: MatE; cl10513 406425005514 MatE; Region: MatE; cl10513 406425005515 lipoyl synthase; Provisional; Region: PRK05481 406425005516 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 406425005517 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425005518 E3 interaction surface; other site 406425005519 lipoyl attachment site [posttranslational modification]; other site 406425005520 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 406425005521 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 406425005522 alpha subunit interface [polypeptide binding]; other site 406425005523 TPP binding site [chemical binding]; other site 406425005524 heterodimer interface [polypeptide binding]; other site 406425005525 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425005526 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 406425005527 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 406425005528 tetramer interface [polypeptide binding]; other site 406425005529 TPP-binding site [chemical binding]; other site 406425005530 heterodimer interface [polypeptide binding]; other site 406425005531 phosphorylation loop region [posttranslational modification] 406425005532 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425005533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005534 NAD(P) binding site [chemical binding]; other site 406425005535 active site 406425005536 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 406425005537 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425005538 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005539 Walker A motif; other site 406425005540 ATP binding site [chemical binding]; other site 406425005541 Walker B motif; other site 406425005542 arginine finger; other site 406425005543 Helix-turn-helix domains; Region: HTH; cl00088 406425005544 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425005545 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 406425005546 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 406425005547 DNA binding residues [nucleotide binding] 406425005548 putative dimer interface [polypeptide binding]; other site 406425005549 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 406425005550 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 406425005551 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 406425005552 Clp amino terminal domain; Region: Clp_N; pfam02861 406425005553 Clp amino terminal domain; Region: Clp_N; pfam02861 406425005554 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005555 Walker A motif; other site 406425005556 ATP binding site [chemical binding]; other site 406425005557 Walker B motif; other site 406425005558 arginine finger; other site 406425005559 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005560 Walker A motif; other site 406425005561 ATP binding site [chemical binding]; other site 406425005562 Walker B motif; other site 406425005563 arginine finger; other site 406425005564 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425005565 Helix-turn-helix domains; Region: HTH; cl00088 406425005566 Rrf2 family protein; Region: rrf2_super; TIGR00738 406425005567 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 406425005568 apolar tunnel; other site 406425005569 heme binding site [chemical binding]; other site 406425005570 dimerization interface [polypeptide binding]; other site 406425005571 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 406425005572 MoaE homodimer interface [polypeptide binding]; other site 406425005573 MoaD interaction [polypeptide binding]; other site 406425005574 active site residues [active] 406425005575 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 406425005576 MoaE interaction surface [polypeptide binding]; other site 406425005577 MoeB interaction surface [polypeptide binding]; other site 406425005578 thiocarboxylated glycine; other site 406425005579 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 406425005580 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425005581 dimer interface [polypeptide binding]; other site 406425005582 putative functional site; other site 406425005583 putative MPT binding site; other site 406425005584 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 406425005585 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 406425005586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425005587 catalytic residue [active] 406425005588 homoserine dehydrogenase; Provisional; Region: PRK06349 406425005589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005590 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 406425005591 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 406425005592 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 406425005593 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425005594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425005595 homodimer interface [polypeptide binding]; other site 406425005596 catalytic residue [active] 406425005597 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 406425005598 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425005599 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 406425005600 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 406425005601 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 406425005602 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 406425005603 inhibitor-cofactor binding pocket; inhibition site 406425005604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425005605 catalytic residue [active] 406425005606 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 406425005607 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 406425005608 Ligand binding site; other site 406425005609 Putative Catalytic site; other site 406425005610 DXD motif; other site 406425005611 putative formyltransferase; Provisional; Region: PRK06988 406425005612 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 406425005613 active site 406425005614 substrate binding site [chemical binding]; other site 406425005615 cosubstrate binding site; other site 406425005616 catalytic site [active] 406425005617 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 406425005618 active site 406425005619 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 406425005620 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 406425005621 NAD binding site [chemical binding]; other site 406425005622 substrate binding site [chemical binding]; other site 406425005623 active site 406425005624 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 406425005625 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 406425005626 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 406425005627 catalytic triad [active] 406425005628 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 406425005629 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 406425005630 putative active site [active] 406425005631 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005632 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 406425005633 NlpC/P60 family; Region: NLPC_P60; cl11438 406425005634 Phosphate transporter family; Region: PHO4; cl00396 406425005635 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 406425005636 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 406425005637 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005638 Walker A motif; other site 406425005639 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 406425005640 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 406425005641 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 406425005642 ATP binding site [chemical binding]; other site 406425005643 Walker B motif; other site 406425005644 DNA binding loops [nucleotide binding] 406425005645 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 406425005646 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 406425005647 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 406425005648 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 406425005649 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 406425005650 Putative zinc-finger; Region: zf-HC2; cl15806 406425005651 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 406425005652 RNA polymerase sigma factor; Provisional; Region: PRK12533 406425005653 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425005654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425005655 Helix-turn-helix domains; Region: HTH; cl00088 406425005656 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425005657 putative effector binding pocket; other site 406425005658 dimerization interface [polypeptide binding]; other site 406425005659 glyoxylate carboligase; Provisional; Region: PRK11269 406425005660 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425005661 PYR/PP interface [polypeptide binding]; other site 406425005662 dimer interface [polypeptide binding]; other site 406425005663 TPP binding site [chemical binding]; other site 406425005664 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425005665 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 406425005666 TPP-binding site [chemical binding]; other site 406425005667 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 406425005668 tartronate semialdehyde reductase; Provisional; Region: PRK15059 406425005669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005670 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 406425005671 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425005672 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 406425005673 active site 406425005674 homodimer interface [polypeptide binding]; other site 406425005675 homotetramer interface [polypeptide binding]; other site 406425005676 psiF repeat; Region: PsiF_repeat; pfam07769 406425005677 psiF repeat; Region: PsiF_repeat; pfam07769 406425005678 Domain of unknown function DUF221; Region: DUF221; pfam02714 406425005679 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425005680 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 406425005681 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425005682 putative ADP-binding pocket [chemical binding]; other site 406425005683 Predicted ATPase [General function prediction only]; Region: COG4637 406425005684 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005685 Walker A/P-loop; other site 406425005686 ATP binding site [chemical binding]; other site 406425005687 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425005688 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425005689 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425005690 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425005691 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425005692 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 406425005693 active site 406425005694 DNA polymerase III subunit delta'; Validated; Region: PRK06964 406425005695 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425005696 thymidylate kinase; Validated; Region: tmk; PRK00698 406425005697 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 406425005698 TMP-binding site; other site 406425005699 ATP-binding site [chemical binding]; other site 406425005700 YceG-like family; Region: YceG; pfam02618 406425005701 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 406425005702 dimerization interface [polypeptide binding]; other site 406425005703 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 406425005704 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 406425005705 NRDE protein; Region: NRDE; cl01315 406425005706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425005707 Coenzyme A binding pocket [chemical binding]; other site 406425005708 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425005709 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425005710 substrate binding pocket [chemical binding]; other site 406425005711 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425005712 CoenzymeA binding site [chemical binding]; other site 406425005713 subunit interaction site [polypeptide binding]; other site 406425005714 PHB binding site; other site 406425005715 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 406425005716 Cache domain; Region: Cache_1; pfam02743 406425005717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425005718 metal binding site [ion binding]; metal-binding site 406425005719 active site 406425005720 I-site; other site 406425005721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425005722 metal binding site [ion binding]; metal-binding site 406425005723 active site 406425005724 I-site; other site 406425005725 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 406425005726 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425005727 dimer interface [polypeptide binding]; other site 406425005728 active site 406425005729 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 406425005730 Isochorismatase family; Region: Isochorismatase; pfam00857 406425005731 catalytic triad [active] 406425005732 metal binding site [ion binding]; metal-binding site 406425005733 conserved cis-peptide bond; other site 406425005734 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425005735 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 406425005736 substrate binding site [chemical binding]; other site 406425005737 oxyanion hole (OAH) forming residues; other site 406425005738 trimer interface [polypeptide binding]; other site 406425005739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005740 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425005741 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425005742 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 406425005743 AMP-binding enzyme; Region: AMP-binding; cl15778 406425005744 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425005745 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 406425005746 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 406425005747 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 406425005748 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 406425005749 Intracellular septation protein A; Region: IspA; cl01098 406425005750 BolA-like protein; Region: BolA; cl00386 406425005751 PPIC-type PPIASE domain; Region: Rotamase; cl08278 406425005752 Predicted acetyltransferase [General function prediction only]; Region: COG3153 406425005753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425005754 Coenzyme A binding pocket [chemical binding]; other site 406425005755 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 406425005756 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 406425005757 dimerization interface [polypeptide binding]; other site 406425005758 ATP binding site [chemical binding]; other site 406425005759 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 406425005760 dimerization interface [polypeptide binding]; other site 406425005761 ATP binding site [chemical binding]; other site 406425005762 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 406425005763 putative active site [active] 406425005764 catalytic triad [active] 406425005765 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425005766 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 406425005767 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 406425005768 putative substrate binding site [chemical binding]; other site 406425005769 putative ATP binding site [chemical binding]; other site 406425005770 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 406425005771 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 406425005772 active site 406425005773 dimer interface [polypeptide binding]; other site 406425005774 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 406425005775 dimer interface [polypeptide binding]; other site 406425005776 active site 406425005777 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 406425005778 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 406425005779 Walker A/P-loop; other site 406425005780 ATP binding site [chemical binding]; other site 406425005781 Q-loop/lid; other site 406425005782 ABC transporter signature motif; other site 406425005783 Walker B; other site 406425005784 D-loop; other site 406425005785 H-loop/switch region; other site 406425005786 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 406425005787 active site 406425005788 catalytic triad [active] 406425005789 oxyanion hole [active] 406425005790 switch loop; other site 406425005791 SurA N-terminal domain; Region: SurA_N_3; cl07813 406425005792 periplasmic folding chaperone; Provisional; Region: PRK10788 406425005793 PPIC-type PPIASE domain; Region: Rotamase; cl08278 406425005794 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 406425005795 Found in ATP-dependent protease La (LON); Region: LON; smart00464 406425005796 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005797 Walker A motif; other site 406425005798 ATP binding site [chemical binding]; other site 406425005799 Walker B motif; other site 406425005800 arginine finger; other site 406425005801 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 406425005802 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 406425005803 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 406425005804 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425005805 Walker A motif; other site 406425005806 ATP binding site [chemical binding]; other site 406425005807 Walker B motif; other site 406425005808 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425005809 Clp protease; Region: CLP_protease; pfam00574 406425005810 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 406425005811 oligomer interface [polypeptide binding]; other site 406425005812 active site residues [active] 406425005813 trigger factor; Provisional; Region: tig; PRK01490 406425005814 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 406425005815 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 406425005816 Glycerate kinase family; Region: Gly_kinase; cl00841 406425005817 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425005818 Helix-turn-helix domains; Region: HTH; cl00088 406425005819 Helix-turn-helix domains; Region: HTH; cl00088 406425005820 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 406425005821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005822 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425005823 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425005824 dimerization interface [polypeptide binding]; other site 406425005825 DNA binding residues [nucleotide binding] 406425005826 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425005827 eyelet of channel; other site 406425005828 trimer interface [polypeptide binding]; other site 406425005829 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 406425005830 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425005831 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425005832 putative active site [active] 406425005833 putative NTP binding site [chemical binding]; other site 406425005834 putative nucleic acid binding site [nucleotide binding]; other site 406425005835 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425005836 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 406425005837 active site lid residues [active] 406425005838 substrate binding pocket [chemical binding]; other site 406425005839 catalytic residues [active] 406425005840 substrate-Mg2+ binding site; other site 406425005841 aspartate-rich region 1; other site 406425005842 aspartate-rich region 2; other site 406425005843 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 406425005844 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 406425005845 osmolarity response regulator; Provisional; Region: ompR; PRK09468 406425005846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425005847 active site 406425005848 phosphorylation site [posttranslational modification] 406425005849 intermolecular recognition site; other site 406425005850 dimerization interface [polypeptide binding]; other site 406425005851 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425005852 DNA binding site [nucleotide binding] 406425005853 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 406425005854 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425005855 dimer interface [polypeptide binding]; other site 406425005856 phosphorylation site [posttranslational modification] 406425005857 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425005858 ATP binding site [chemical binding]; other site 406425005859 Mg2+ binding site [ion binding]; other site 406425005860 G-X-G motif; other site 406425005861 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 406425005862 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 406425005863 dimer interface [polypeptide binding]; other site 406425005864 decamer (pentamer of dimers) interface [polypeptide binding]; other site 406425005865 catalytic triad [active] 406425005866 peroxidatic and resolving cysteines [active] 406425005867 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 406425005868 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425005869 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 406425005870 homotrimer interaction site [polypeptide binding]; other site 406425005871 zinc binding site [ion binding]; other site 406425005872 CDP-binding sites; other site 406425005873 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 406425005874 substrate binding site; other site 406425005875 dimer interface; other site 406425005876 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 406425005877 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 406425005878 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425005879 ATP binding site [chemical binding]; other site 406425005880 putative Mg++ binding site [ion binding]; other site 406425005881 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425005882 nucleotide binding region [chemical binding]; other site 406425005883 ATP-binding site [chemical binding]; other site 406425005884 TRCF domain; Region: TRCF; cl04088 406425005885 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 406425005886 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 406425005887 metal binding site [ion binding]; metal-binding site 406425005888 putative dimer interface [polypeptide binding]; other site 406425005889 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 406425005890 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425005891 tetramer interface [polypeptide binding]; other site 406425005892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425005893 catalytic residue [active] 406425005894 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 406425005895 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 406425005896 Transglycosylase; Region: Transgly; cl07896 406425005897 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425005898 PspA/IM30 family; Region: PspA_IM30; pfam04012 406425005899 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425005900 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 406425005901 TPR motif; other site 406425005902 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 406425005903 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 406425005904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005905 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 406425005906 Dodecin; Region: Dodecin; cl01328 406425005907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425005908 Helix-turn-helix domains; Region: HTH; cl00088 406425005909 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 406425005910 putative substrate binding pocket [chemical binding]; other site 406425005911 putative dimerization interface [polypeptide binding]; other site 406425005912 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 406425005913 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 406425005914 active site 406425005915 putative substrate binding pocket [chemical binding]; other site 406425005916 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 406425005917 active site 406425005918 homotetramer interface [polypeptide binding]; other site 406425005919 Predicted membrane protein [Function unknown]; Region: COG3748 406425005920 Protein of unknown function (DUF989); Region: DUF989; pfam06181 406425005921 Cytochrome c; Region: Cytochrom_C; cl11414 406425005922 ACT domain; Region: ACT_3; pfam10000 406425005923 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 406425005924 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 406425005925 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 406425005926 allantoicase; Provisional; Region: PRK13257 406425005927 Allantoicase repeat; Region: Allantoicase; pfam03561 406425005928 Allantoicase repeat; Region: Allantoicase; pfam03561 406425005929 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 406425005930 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 406425005931 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 406425005932 active site 406425005933 catalytic site [active] 406425005934 tetramer interface [polypeptide binding]; other site 406425005935 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425005936 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 406425005937 Na binding site [ion binding]; other site 406425005938 putative substrate binding site [chemical binding]; other site 406425005939 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425005940 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425005941 DNA-binding site [nucleotide binding]; DNA binding site 406425005942 FCD domain; Region: FCD; cl11656 406425005943 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 406425005944 dimer interface [polypeptide binding]; other site 406425005945 catalytic triad [active] 406425005946 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 406425005947 nucleoside/Zn binding site; other site 406425005948 dimer interface [polypeptide binding]; other site 406425005949 catalytic motif [active] 406425005950 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 406425005951 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425005952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425005953 putative substrate translocation pore; other site 406425005954 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425005955 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425005956 DNA-binding site [nucleotide binding]; DNA binding site 406425005957 UTRA domain; Region: UTRA; cl01230 406425005958 putative oxidoreductase; Provisional; Region: PRK08275 406425005959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005960 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 406425005961 Ferredoxin [Energy production and conversion]; Region: COG1146 406425005962 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 406425005963 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425005964 NMT1-like family; Region: NMT1_2; cl15260 406425005965 NosL; Region: NosL; cl01769 406425005966 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425005967 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425005968 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425005969 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425005970 Walker A/P-loop; other site 406425005971 ATP binding site [chemical binding]; other site 406425005972 Q-loop/lid; other site 406425005973 ABC transporter signature motif; other site 406425005974 Walker B; other site 406425005975 D-loop; other site 406425005976 H-loop/switch region; other site 406425005977 HEAT repeats; Region: HEAT_2; pfam13646 406425005978 HEAT repeats; Region: HEAT_2; pfam13646 406425005979 HEAT repeats; Region: HEAT_2; pfam13646 406425005980 Protein of unknown function (DUF971); Region: DUF971; cl01414 406425005981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425005982 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425005983 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 406425005984 nudix motif; other site 406425005985 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425005986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425005987 Coenzyme A binding pocket [chemical binding]; other site 406425005988 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425005989 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 406425005990 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 406425005991 active site 406425005992 catalytic site [active] 406425005993 substrate binding site [chemical binding]; other site 406425005994 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425005995 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425005996 putative active site [active] 406425005997 putative NTP binding site [chemical binding]; other site 406425005998 putative nucleic acid binding site [nucleotide binding]; other site 406425005999 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425006000 GMP synthase; Reviewed; Region: guaA; PRK00074 406425006001 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 406425006002 AMP/PPi binding site [chemical binding]; other site 406425006003 candidate oxyanion hole; other site 406425006004 catalytic triad [active] 406425006005 potential glutamine specificity residues [chemical binding]; other site 406425006006 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 406425006007 ATP Binding subdomain [chemical binding]; other site 406425006008 Ligand Binding sites [chemical binding]; other site 406425006009 Dimerization subdomain; other site 406425006010 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 406425006011 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 406425006012 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 406425006013 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 406425006014 active site 406425006015 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 406425006016 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425006017 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 406425006018 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 406425006019 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 406425006020 putative coenzyme Q binding site [chemical binding]; other site 406425006021 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 406425006022 SmpB-tmRNA interface; other site 406425006023 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425006024 phosphoenolpyruvate synthase; Validated; Region: PRK06464 406425006025 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 406425006026 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 406425006027 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425006028 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 406425006029 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 406425006030 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 406425006031 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 406425006032 RNA/DNA hybrid binding site [nucleotide binding]; other site 406425006033 active site 406425006034 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 406425006035 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 406425006036 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 406425006037 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 406425006038 active site 406425006039 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 406425006040 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 406425006041 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 406425006042 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 406425006043 trimer interface [polypeptide binding]; other site 406425006044 active site 406425006045 UDP-GlcNAc binding site [chemical binding]; other site 406425006046 lipid binding site [chemical binding]; lipid-binding site 406425006047 periplasmic chaperone; Provisional; Region: PRK10780 406425006048 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 406425006049 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 406425006050 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425006051 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425006052 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425006053 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425006054 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425006055 Surface antigen; Region: Bac_surface_Ag; cl03097 406425006056 zinc metallopeptidase RseP; Provisional; Region: PRK10779 406425006057 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 406425006058 active site 406425006059 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 406425006060 protein binding site [polypeptide binding]; other site 406425006061 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 406425006062 putative substrate binding region [chemical binding]; other site 406425006063 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 406425006064 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 406425006065 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 406425006066 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 406425006067 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 406425006068 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 406425006069 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 406425006070 catalytic residue [active] 406425006071 putative FPP diphosphate binding site; other site 406425006072 putative FPP binding hydrophobic cleft; other site 406425006073 dimer interface [polypeptide binding]; other site 406425006074 putative IPP diphosphate binding site; other site 406425006075 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 406425006076 hinge region; other site 406425006077 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 406425006078 putative nucleotide binding site [chemical binding]; other site 406425006079 uridine monophosphate binding site [chemical binding]; other site 406425006080 homohexameric interface [polypeptide binding]; other site 406425006081 elongation factor Ts; Provisional; Region: tsf; PRK09377 406425006082 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 406425006083 Elongation factor TS; Region: EF_TS; pfam00889 406425006084 Elongation factor TS; Region: EF_TS; pfam00889 406425006085 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 406425006086 rRNA interaction site [nucleotide binding]; other site 406425006087 S8 interaction site; other site 406425006088 putative laminin-1 binding site; other site 406425006089 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 406425006090 active site 406425006091 PII uridylyl-transferase; Provisional; Region: PRK03059 406425006092 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 406425006093 metal binding triad; other site 406425006094 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 406425006095 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425006096 Zn2+ binding site [ion binding]; other site 406425006097 Mg2+ binding site [ion binding]; other site 406425006098 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 406425006099 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 406425006100 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 406425006101 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 406425006102 RNA binding surface [nucleotide binding]; other site 406425006103 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 406425006104 active site 406425006105 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 406425006106 active site 406425006107 catalytic residues [active] 406425006108 metal binding site [ion binding]; metal-binding site 406425006109 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 406425006110 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 406425006111 nucleotide binding pocket [chemical binding]; other site 406425006112 K-X-D-G motif; other site 406425006113 catalytic site [active] 406425006114 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 406425006115 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 406425006116 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 406425006117 Dimer interface [polypeptide binding]; other site 406425006118 BRCT sequence motif; other site 406425006119 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 406425006120 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 406425006121 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 406425006122 Walker A/P-loop; other site 406425006123 ATP binding site [chemical binding]; other site 406425006124 Q-loop/lid; other site 406425006125 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 406425006126 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 406425006127 Q-loop/lid; other site 406425006128 ABC transporter signature motif; other site 406425006129 Walker B; other site 406425006130 D-loop; other site 406425006131 H-loop/switch region; other site 406425006132 EamA-like transporter family; Region: EamA; cl01037 406425006133 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 406425006134 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425006135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425006136 homodimer interface [polypeptide binding]; other site 406425006137 catalytic residue [active] 406425006138 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 406425006139 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 406425006140 trimer interface [polypeptide binding]; other site 406425006141 active site 406425006142 substrate binding site [chemical binding]; other site 406425006143 CoA binding site [chemical binding]; other site 406425006144 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 406425006145 ArsC family; Region: ArsC; pfam03960 406425006146 putative catalytic residues [active] 406425006147 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 406425006148 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 406425006149 metal binding site [ion binding]; metal-binding site 406425006150 dimer interface [polypeptide binding]; other site 406425006151 HemK family putative methylases; Region: hemK_fam; TIGR00536 406425006152 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425006153 S-adenosylmethionine binding site [chemical binding]; other site 406425006154 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 406425006155 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 406425006156 putative active site [active] 406425006157 catalytic site [active] 406425006158 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 406425006159 putative active site [active] 406425006160 catalytic site [active] 406425006161 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 406425006162 catalytic residues [active] 406425006163 dimer interface [polypeptide binding]; other site 406425006164 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 406425006165 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425006166 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425006167 ABC transporter; Region: ABC_tran_2; pfam12848 406425006168 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425006169 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 406425006170 DNA repair protein RadA; Provisional; Region: PRK11823 406425006171 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 406425006172 Walker A motif/ATP binding site; other site 406425006173 ATP binding site [chemical binding]; other site 406425006174 Walker B motif; other site 406425006175 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 406425006176 alanine racemase; Reviewed; Region: dadX; PRK03646 406425006177 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 406425006178 active site 406425006179 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425006180 substrate binding site [chemical binding]; other site 406425006181 catalytic residues [active] 406425006182 dimer interface [polypeptide binding]; other site 406425006183 lysophospholipid transporter LplT; Provisional; Region: PRK11195 406425006184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425006185 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 406425006186 dimer interface [polypeptide binding]; other site 406425006187 substrate binding site [chemical binding]; other site 406425006188 ATP binding site [chemical binding]; other site 406425006189 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 406425006190 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 406425006191 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 406425006192 Fe-S cluster binding site [ion binding]; other site 406425006193 active site 406425006194 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 406425006195 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425006196 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 406425006197 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 406425006198 acyl-CoA binding pocket [chemical binding]; other site 406425006199 CoA binding site [chemical binding]; other site 406425006200 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425006201 DEAD-like helicases superfamily; Region: DEXDc; smart00487 406425006202 ATP binding site [chemical binding]; other site 406425006203 Mg++ binding site [ion binding]; other site 406425006204 motif III; other site 406425006205 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425006206 nucleotide binding region [chemical binding]; other site 406425006207 ATP-binding site [chemical binding]; other site 406425006208 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 406425006209 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425006210 tetramer interface [polypeptide binding]; other site 406425006211 active site 406425006212 Mg2+/Mn2+ binding site [ion binding]; other site 406425006213 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425006214 Ligand Binding Site [chemical binding]; other site 406425006215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425006216 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425006217 putative effector binding pocket; other site 406425006218 dimerization interface [polypeptide binding]; other site 406425006219 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 406425006220 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425006221 motif II; other site 406425006222 malate synthase A; Region: malate_syn_A; TIGR01344 406425006223 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 406425006224 active site 406425006225 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 406425006226 putative active site pocket [active] 406425006227 dimerization interface [polypeptide binding]; other site 406425006228 putative catalytic residue [active] 406425006229 Cupin domain; Region: Cupin_2; cl09118 406425006230 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425006231 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425006232 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425006233 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425006234 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425006235 Coenzyme A binding pocket [chemical binding]; other site 406425006236 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 406425006237 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 406425006238 active site 406425006239 HIGH motif; other site 406425006240 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 406425006241 active site 406425006242 KMSKS motif; other site 406425006243 hypothetical protein; Provisional; Region: PRK10279 406425006244 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 406425006245 nucleophile elbow; other site 406425006246 NlpC/P60 family; Region: NLPC_P60; cl11438 406425006247 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 406425006248 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425006249 Walker A/P-loop; other site 406425006250 ATP binding site [chemical binding]; other site 406425006251 Q-loop/lid; other site 406425006252 ABC transporter signature motif; other site 406425006253 Walker B; other site 406425006254 D-loop; other site 406425006255 H-loop/switch region; other site 406425006256 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425006257 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425006258 Walker A/P-loop; other site 406425006259 ATP binding site [chemical binding]; other site 406425006260 Q-loop/lid; other site 406425006261 ABC transporter signature motif; other site 406425006262 Walker B; other site 406425006263 D-loop; other site 406425006264 H-loop/switch region; other site 406425006265 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425006266 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 406425006267 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425006268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425006269 dimer interface [polypeptide binding]; other site 406425006270 conserved gate region; other site 406425006271 putative PBP binding loops; other site 406425006272 ABC-ATPase subunit interface; other site 406425006273 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 406425006274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425006275 dimer interface [polypeptide binding]; other site 406425006276 conserved gate region; other site 406425006277 putative PBP binding loops; other site 406425006278 ABC-ATPase subunit interface; other site 406425006279 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 406425006280 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 406425006281 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425006282 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425006283 DNA binding site [nucleotide binding] 406425006284 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425006285 dimerization interface [polypeptide binding]; other site 406425006286 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006287 dimer interface [polypeptide binding]; other site 406425006288 phosphorylation site [posttranslational modification] 406425006289 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425006290 ATP binding site [chemical binding]; other site 406425006291 Mg2+ binding site [ion binding]; other site 406425006292 G-X-G motif; other site 406425006293 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425006294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006295 active site 406425006296 phosphorylation site [posttranslational modification] 406425006297 intermolecular recognition site; other site 406425006298 dimerization interface [polypeptide binding]; other site 406425006299 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425006300 DNA binding site [nucleotide binding] 406425006301 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425006302 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 406425006303 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 406425006304 Subunit I/III interface [polypeptide binding]; other site 406425006305 Subunit III/IV interface [polypeptide binding]; other site 406425006306 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 406425006307 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 406425006308 D-pathway; other site 406425006309 Putative ubiquinol binding site [chemical binding]; other site 406425006310 Low-spin heme (heme b) binding site [chemical binding]; other site 406425006311 Putative water exit pathway; other site 406425006312 Binuclear center (heme o3/CuB) [ion binding]; other site 406425006313 K-pathway; other site 406425006314 Putative proton exit pathway; other site 406425006315 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 406425006316 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425006317 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 406425006318 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 406425006319 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 406425006320 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; cl05288 406425006321 aspartate kinase; Reviewed; Region: PRK06635 406425006322 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 406425006323 putative nucleotide binding site [chemical binding]; other site 406425006324 putative catalytic residues [active] 406425006325 putative Mg ion binding site [ion binding]; other site 406425006326 putative aspartate binding site [chemical binding]; other site 406425006327 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 406425006328 putative allosteric regulatory site; other site 406425006329 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 406425006330 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 406425006331 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 406425006332 Ligand Binding Site [chemical binding]; other site 406425006333 TilS substrate binding domain; Region: TilS; pfam09179 406425006334 B3/4 domain; Region: B3_4; cl11458 406425006335 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 406425006336 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 406425006337 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425006338 endonuclease III; Region: ENDO3c; smart00478 406425006339 minor groove reading motif; other site 406425006340 helix-hairpin-helix signature motif; other site 406425006341 substrate binding pocket [chemical binding]; other site 406425006342 active site 406425006343 Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: CysS; COG0215 406425006344 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 406425006345 active site 406425006346 HIGH motif; other site 406425006347 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 406425006348 KMSKS motif; other site 406425006349 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 406425006350 tRNA binding surface [nucleotide binding]; other site 406425006351 anticodon binding site; other site 406425006352 TPR repeat; Region: TPR_11; pfam13414 406425006353 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425006354 binding surface 406425006355 TPR motif; other site 406425006356 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 406425006357 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 406425006358 substrate binding site [chemical binding]; other site 406425006359 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 406425006360 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 406425006361 substrate binding site [chemical binding]; other site 406425006362 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425006363 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 406425006364 putative active site [active] 406425006365 putative metal binding site [ion binding]; other site 406425006366 serine O-acetyltransferase; Region: cysE; TIGR01172 406425006367 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 406425006368 trimer interface [polypeptide binding]; other site 406425006369 active site 406425006370 substrate binding site [chemical binding]; other site 406425006371 CoA binding site [chemical binding]; other site 406425006372 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 406425006373 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 406425006374 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 406425006375 active site 406425006376 dimerization interface [polypeptide binding]; other site 406425006377 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 406425006378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425006379 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 406425006380 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 406425006381 MutS domain I; Region: MutS_I; pfam01624 406425006382 MutS domain II; Region: MutS_II; pfam05188 406425006383 MutS family domain IV; Region: MutS_IV; pfam05190 406425006384 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 406425006385 Walker A/P-loop; other site 406425006386 ATP binding site [chemical binding]; other site 406425006387 Q-loop/lid; other site 406425006388 ABC transporter signature motif; other site 406425006389 Walker B; other site 406425006390 D-loop; other site 406425006391 H-loop/switch region; other site 406425006392 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 406425006393 Cupin superfamily protein; Region: Cupin_4; pfam08007 406425006394 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425006395 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 406425006396 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 406425006397 dihydrodipicolinate synthase; Region: dapA; TIGR00674 406425006398 dimer interface [polypeptide binding]; other site 406425006399 active site 406425006400 catalytic residue [active] 406425006401 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425006402 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 406425006403 active site 406425006404 HIGH motif; other site 406425006405 dimer interface [polypeptide binding]; other site 406425006406 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425006407 active site 406425006408 KMSKS motif; other site 406425006409 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 406425006410 active site 406425006411 putative substrate binding region [chemical binding]; other site 406425006412 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 406425006413 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 406425006414 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 406425006415 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425006416 nucleophilic elbow; other site 406425006417 catalytic triad; other site 406425006418 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 406425006419 dinuclear metal binding motif [ion binding]; other site 406425006420 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 406425006421 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 406425006422 trimer interface [polypeptide binding]; other site 406425006423 putative metal binding site [ion binding]; other site 406425006424 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 406425006425 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 406425006426 dimerization interface [polypeptide binding]; other site 406425006427 domain crossover interface; other site 406425006428 redox-dependent activation switch; other site 406425006429 Septum formation initiator; Region: DivIC; cl11433 406425006430 enolase; Provisional; Region: eno; PRK00077 406425006431 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 406425006432 dimer interface [polypeptide binding]; other site 406425006433 metal binding site [ion binding]; metal-binding site 406425006434 substrate binding pocket [chemical binding]; other site 406425006435 NeuB family; Region: NeuB; cl00496 406425006436 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 406425006437 CTP synthetase; Validated; Region: pyrG; PRK05380 406425006438 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 406425006439 Catalytic site [active] 406425006440 active site 406425006441 UTP binding site [chemical binding]; other site 406425006442 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 406425006443 active site 406425006444 putative oxyanion hole; other site 406425006445 catalytic triad [active] 406425006446 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425006447 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 406425006448 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 406425006449 Competence protein; Region: Competence; cl00471 406425006450 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425006451 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 406425006452 active site 406425006453 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 406425006454 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 406425006455 Walker A/P-loop; other site 406425006456 ATP binding site [chemical binding]; other site 406425006457 Q-loop/lid; other site 406425006458 ABC transporter signature motif; other site 406425006459 Walker B; other site 406425006460 D-loop; other site 406425006461 H-loop/switch region; other site 406425006462 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 406425006463 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425006464 FtsX-like permease family; Region: FtsX; cl15850 406425006465 Sulfatase; Region: Sulfatase; cl10460 406425006466 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 406425006467 DHH family; Region: DHH; pfam01368 406425006468 DHHA1 domain; Region: DHHA1; pfam02272 406425006469 peptide chain release factor 2; Validated; Region: prfB; PRK00578 406425006470 RF-1 domain; Region: RF-1; cl02875 406425006471 RF-1 domain; Region: RF-1; cl02875 406425006472 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 406425006473 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 406425006474 dimer interface [polypeptide binding]; other site 406425006475 putative anticodon binding site; other site 406425006476 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 406425006477 motif 1; other site 406425006478 active site 406425006479 motif 2; other site 406425006480 motif 3; other site 406425006481 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425006482 catalytic loop [active] 406425006483 iron binding site [ion binding]; other site 406425006484 chaperone protein HscA; Provisional; Region: hscA; PRK05183 406425006485 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 406425006486 co-chaperone HscB; Provisional; Region: hscB; PRK03578 406425006487 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 406425006488 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 406425006489 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 406425006490 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 406425006491 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 406425006492 trimerization site [polypeptide binding]; other site 406425006493 active site 406425006494 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425006495 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 406425006496 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425006497 catalytic residue [active] 406425006498 Helix-turn-helix domains; Region: HTH; cl00088 406425006499 Rrf2 family protein; Region: rrf2_super; TIGR00738 406425006500 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425006501 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425006502 active site 406425006503 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 406425006504 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 406425006505 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 406425006506 Cysteine-rich domain; Region: CCG; pfam02754 406425006507 Cysteine-rich domain; Region: CCG; pfam02754 406425006508 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425006509 Helix-turn-helix domains; Region: HTH; cl00088 406425006510 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425006511 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 406425006512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425006513 Phasin protein; Region: Phasin_2; cl11491 406425006514 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425006515 E3 interaction surface; other site 406425006516 lipoyl attachment site [posttranslational modification]; other site 406425006517 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 406425006518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425006519 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425006520 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425006521 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 406425006522 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425006523 E3 interaction surface; other site 406425006524 lipoyl attachment site [posttranslational modification]; other site 406425006525 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425006526 E3 interaction surface; other site 406425006527 lipoyl attachment site [posttranslational modification]; other site 406425006528 e3 binding domain; Region: E3_binding; pfam02817 406425006529 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 406425006530 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 406425006531 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 406425006532 dimer interface [polypeptide binding]; other site 406425006533 TPP-binding site [chemical binding]; other site 406425006534 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 406425006535 PAS domain S-box; Region: sensory_box; TIGR00229 406425006536 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425006537 putative active site [active] 406425006538 heme pocket [chemical binding]; other site 406425006539 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 406425006540 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006541 dimer interface [polypeptide binding]; other site 406425006542 phosphorylation site [posttranslational modification] 406425006543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425006544 ATP binding site [chemical binding]; other site 406425006545 Mg2+ binding site [ion binding]; other site 406425006546 G-X-G motif; other site 406425006547 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 406425006548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006549 active site 406425006550 phosphorylation site [posttranslational modification] 406425006551 intermolecular recognition site; other site 406425006552 dimerization interface [polypeptide binding]; other site 406425006553 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425006554 DNA binding residues [nucleotide binding] 406425006555 dimerization interface [polypeptide binding]; other site 406425006556 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 406425006557 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 406425006558 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 406425006559 homodimer interface [polypeptide binding]; other site 406425006560 NADP binding site [chemical binding]; other site 406425006561 substrate binding site [chemical binding]; other site 406425006562 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 406425006563 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 406425006564 active site 406425006565 Zn binding site [ion binding]; other site 406425006566 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 406425006567 active site 406425006568 DNA polymerase IV; Validated; Region: PRK02406 406425006569 DNA binding site [nucleotide binding] 406425006570 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425006571 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 406425006572 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 406425006573 putative catalytic site [active] 406425006574 putative phosphate binding site [ion binding]; other site 406425006575 active site 406425006576 metal binding site A [ion binding]; metal-binding site 406425006577 DNA binding site [nucleotide binding] 406425006578 putative AP binding site [nucleotide binding]; other site 406425006579 putative metal binding site B [ion binding]; other site 406425006580 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 406425006581 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425006582 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 406425006583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006584 active site 406425006585 phosphorylation site [posttranslational modification] 406425006586 intermolecular recognition site; other site 406425006587 dimerization interface [polypeptide binding]; other site 406425006588 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425006589 Walker A motif; other site 406425006590 ATP binding site [chemical binding]; other site 406425006591 Walker B motif; other site 406425006592 arginine finger; other site 406425006593 Helix-turn-helix domains; Region: HTH; cl00088 406425006594 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 406425006595 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425006596 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006597 dimer interface [polypeptide binding]; other site 406425006598 phosphorylation site [posttranslational modification] 406425006599 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425006600 ATP binding site [chemical binding]; other site 406425006601 Mg2+ binding site [ion binding]; other site 406425006602 G-X-G motif; other site 406425006603 glutamine synthetase; Provisional; Region: glnA; PRK09469 406425006604 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 406425006605 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425006606 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 406425006607 active site residue [active] 406425006608 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 406425006609 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 406425006610 putative MPT binding site; other site 406425006611 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 406425006612 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 406425006613 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 406425006614 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 406425006615 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 406425006616 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 406425006617 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 406425006618 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425006619 ATP binding site [chemical binding]; other site 406425006620 putative Mg++ binding site [ion binding]; other site 406425006621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425006622 Helicase associated domain (HA2); Region: HA2; cl04503 406425006623 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 406425006624 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 406425006625 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 406425006626 N-acetylglutamate synthase; Validated; Region: PRK05279 406425006627 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 406425006628 putative feedback inhibition sensing region; other site 406425006629 putative nucleotide binding site [chemical binding]; other site 406425006630 putative substrate binding site [chemical binding]; other site 406425006631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425006632 Coenzyme A binding pocket [chemical binding]; other site 406425006633 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 406425006634 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425006635 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425006636 putative substrate translocation pore; other site 406425006637 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425006638 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425006639 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425006640 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425006641 active site 406425006642 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425006643 Helix-turn-helix domains; Region: HTH; cl00088 406425006644 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425006645 dimerization interface [polypeptide binding]; other site 406425006646 putative aminotransferase; Validated; Region: PRK07480 406425006647 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425006648 inhibitor-cofactor binding pocket; inhibition site 406425006649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425006650 catalytic residue [active] 406425006651 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425006652 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425006653 Peptidase C26; Region: Peptidase_C26; pfam07722 406425006654 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 406425006655 catalytic triad [active] 406425006656 N-formylglutamate amidohydrolase; Region: FGase; cl01522 406425006657 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 406425006658 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 406425006659 active site 406425006660 imidazolonepropionase; Validated; Region: PRK09356 406425006661 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 406425006662 active site 406425006663 HutD; Region: HutD; cl01532 406425006664 urocanate hydratase; Provisional; Region: PRK05414 406425006665 urocanate hydratase; Region: hutU; TIGR01228 406425006666 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425006667 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425006668 DNA-binding site [nucleotide binding]; DNA binding site 406425006669 UTRA domain; Region: UTRA; cl01230 406425006670 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 406425006671 active sites [active] 406425006672 tetramer interface [polypeptide binding]; other site 406425006673 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425006674 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425006675 substrate binding pocket [chemical binding]; other site 406425006676 membrane-bound complex binding site; other site 406425006677 hinge residues; other site 406425006678 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 406425006679 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 406425006680 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 406425006681 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 406425006682 Helix-turn-helix domains; Region: HTH; cl00088 406425006683 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425006684 dimerization interface [polypeptide binding]; other site 406425006685 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425006686 putative substrate translocation pore; other site 406425006687 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425006688 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 406425006689 DNA photolyase; Region: DNA_photolyase; pfam00875 406425006690 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 406425006691 D-galactonate transporter; Region: 2A0114; TIGR00893 406425006692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425006693 putative substrate translocation pore; other site 406425006694 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 406425006695 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 406425006696 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425006697 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425006698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425006699 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425006700 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425006701 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425006702 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 406425006703 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425006704 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425006705 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425006706 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425006707 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 406425006708 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425006709 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425006710 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425006711 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425006712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425006713 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425006714 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425006715 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425006716 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425006717 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 406425006718 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 406425006719 TIGR02680 family protein; Region: TIGR02680 406425006720 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425006721 Na binding site [ion binding]; other site 406425006722 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 406425006723 acetyl-CoA synthetase; Provisional; Region: PRK00174 406425006724 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 406425006725 AMP-binding enzyme; Region: AMP-binding; cl15778 406425006726 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425006727 EamA-like transporter family; Region: EamA; cl01037 406425006728 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425006729 EamA-like transporter family; Region: EamA; cl01037 406425006730 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 406425006731 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 406425006732 Fumarase C-terminus; Region: Fumerase_C; cl00795 406425006733 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 406425006734 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 406425006735 heme binding site [chemical binding]; other site 406425006736 ferroxidase pore; other site 406425006737 ferroxidase diiron center [ion binding]; other site 406425006738 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425006739 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 406425006740 Gram-negative bacterial tonB protein; Region: TonB; cl10048 406425006741 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425006742 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 406425006743 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425006744 Helix-turn-helix domains; Region: HTH; cl00088 406425006745 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 406425006746 putative effector binding pocket; other site 406425006747 putative dimerization interface [polypeptide binding]; other site 406425006748 Pirin-related protein [General function prediction only]; Region: COG1741 406425006749 Cupin domain; Region: Cupin_2; cl09118 406425006750 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425006751 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 406425006752 putative hydrophobic ligand binding site [chemical binding]; other site 406425006753 Hemin uptake protein hemP; Region: hemP; cl10043 406425006754 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 406425006755 4Fe-4S binding domain; Region: Fer4_5; pfam12801 406425006756 Iron permease FTR1 family; Region: FTR1; cl00475 406425006757 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425006758 Fe2+ transport protein; Region: Iron_transport; cl01377 406425006759 excinuclease ABC subunit B; Provisional; Region: PRK05298 406425006760 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425006761 ATP binding site [chemical binding]; other site 406425006762 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425006763 nucleotide binding region [chemical binding]; other site 406425006764 ATP-binding site [chemical binding]; other site 406425006765 Ultra-violet resistance protein B; Region: UvrB; pfam12344 406425006766 UvrB/uvrC motif; Region: UVR; pfam02151 406425006767 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 406425006768 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425006769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425006770 homodimer interface [polypeptide binding]; other site 406425006771 catalytic residue [active] 406425006772 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 406425006773 classical (c) SDRs; Region: SDR_c; cd05233 406425006774 NAD(P) binding site [chemical binding]; other site 406425006775 active site 406425006776 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425006777 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425006778 active site 406425006779 catalytic tetrad [active] 406425006780 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 406425006781 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 406425006782 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 406425006783 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 406425006784 DNA binding residues [nucleotide binding] 406425006785 dimer interface [polypeptide binding]; other site 406425006786 copper binding site [ion binding]; other site 406425006787 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 406425006788 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425006789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 406425006790 active site 406425006791 phosphorylation site [posttranslational modification] 406425006792 intermolecular recognition site; other site 406425006793 dimerization interface [polypeptide binding]; other site 406425006794 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425006795 DNA binding residues [nucleotide binding] 406425006796 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 406425006797 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 406425006798 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 406425006799 putative active site [active] 406425006800 Zn binding site [ion binding]; other site 406425006801 Protein of unknown function (DUF328); Region: DUF328; cl01143 406425006802 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 406425006803 methionine aminotransferase; Validated; Region: PRK09082 406425006804 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425006805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425006806 homodimer interface [polypeptide binding]; other site 406425006807 catalytic residue [active] 406425006808 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425006809 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 406425006810 C-terminal domain interface [polypeptide binding]; other site 406425006811 GSH binding site (G-site) [chemical binding]; other site 406425006812 dimer interface [polypeptide binding]; other site 406425006813 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 406425006814 putative N-terminal domain interface [polypeptide binding]; other site 406425006815 putative dimer interface [polypeptide binding]; other site 406425006816 putative substrate binding pocket (H-site) [chemical binding]; other site 406425006817 enoyl-CoA hydratase; Provisional; Region: PRK07511 406425006818 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425006819 substrate binding site [chemical binding]; other site 406425006820 oxyanion hole (OAH) forming residues; other site 406425006821 trimer interface [polypeptide binding]; other site 406425006822 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 406425006823 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 406425006824 C-terminal domain interface [polypeptide binding]; other site 406425006825 GSH binding site (G-site) [chemical binding]; other site 406425006826 dimer interface [polypeptide binding]; other site 406425006827 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 406425006828 N-terminal domain interface [polypeptide binding]; other site 406425006829 putative dimer interface [polypeptide binding]; other site 406425006830 active site 406425006831 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 406425006832 putative active site [active] 406425006833 putative catalytic site [active] 406425006834 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 406425006835 putative active site [active] 406425006836 putative catalytic site [active] 406425006837 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425006838 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425006839 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425006840 active site 406425006841 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425006842 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425006843 FAD binding site [chemical binding]; other site 406425006844 substrate binding site [chemical binding]; other site 406425006845 catalytic base [active] 406425006846 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 406425006847 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 406425006848 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 406425006849 dimer interface [polypeptide binding]; other site 406425006850 ADP-ribose binding site [chemical binding]; other site 406425006851 active site 406425006852 nudix motif; other site 406425006853 metal binding site [ion binding]; metal-binding site 406425006854 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 406425006855 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 406425006856 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 406425006857 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 406425006858 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 406425006859 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 406425006860 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 406425006861 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 406425006862 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 406425006863 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 406425006864 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 406425006865 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 406425006866 4Fe-4S binding domain; Region: Fer4; cl02805 406425006867 4Fe-4S binding domain; Region: Fer4; cl02805 406425006868 NADH dehydrogenase; Region: NADHdh; cl00469 406425006869 NADH dehydrogenase subunit G; Validated; Region: PRK09129 406425006870 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425006871 catalytic loop [active] 406425006872 iron binding site [ion binding]; other site 406425006873 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 406425006874 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 406425006875 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 406425006876 SLBB domain; Region: SLBB; pfam10531 406425006877 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 406425006878 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 406425006879 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 406425006880 putative dimer interface [polypeptide binding]; other site 406425006881 [2Fe-2S] cluster binding site [ion binding]; other site 406425006882 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 406425006883 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 406425006884 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 406425006885 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 406425006886 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 406425006887 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 406425006888 Preprotein translocase SecG subunit; Region: SecG; cl09123 406425006889 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 406425006890 substrate binding site [chemical binding]; other site 406425006891 dimer interface [polypeptide binding]; other site 406425006892 catalytic triad [active] 406425006893 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 406425006894 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 406425006895 NAD(P) binding site [chemical binding]; other site 406425006896 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 406425006897 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 406425006898 RNase E interface [polypeptide binding]; other site 406425006899 trimer interface [polypeptide binding]; other site 406425006900 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 406425006901 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 406425006902 RNase E interface [polypeptide binding]; other site 406425006903 trimer interface [polypeptide binding]; other site 406425006904 active site 406425006905 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 406425006906 putative nucleic acid binding region [nucleotide binding]; other site 406425006907 G-X-X-G motif; other site 406425006908 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 406425006909 RNA binding site [nucleotide binding]; other site 406425006910 domain interface; other site 406425006911 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 406425006912 16S/18S rRNA binding site [nucleotide binding]; other site 406425006913 S13e-L30e interaction site [polypeptide binding]; other site 406425006914 25S rRNA binding site [nucleotide binding]; other site 406425006915 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425006916 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 406425006917 putative ligand binding site [chemical binding]; other site 406425006918 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 406425006919 active site clefts [active] 406425006920 zinc binding site [ion binding]; other site 406425006921 dimer interface [polypeptide binding]; other site 406425006922 Sulfate transporter family; Region: Sulfate_transp; cl15842 406425006923 Sulfate transporter family; Region: Sulfate_transp; cl15842 406425006924 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 406425006925 2-isopropylmalate synthase; Validated; Region: PRK00915 406425006926 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 406425006927 active site 406425006928 catalytic residues [active] 406425006929 metal binding site [ion binding]; metal-binding site 406425006930 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 406425006931 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 406425006932 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 406425006933 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 406425006934 ketol-acid reductoisomerase; Provisional; Region: PRK05479 406425006935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425006936 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 406425006937 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 406425006938 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 406425006939 putative valine binding site [chemical binding]; other site 406425006940 dimer interface [polypeptide binding]; other site 406425006941 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 406425006942 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 406425006943 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425006944 PYR/PP interface [polypeptide binding]; other site 406425006945 dimer interface [polypeptide binding]; other site 406425006946 TPP binding site [chemical binding]; other site 406425006947 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425006948 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 406425006949 TPP-binding site [chemical binding]; other site 406425006950 dimer interface [polypeptide binding]; other site 406425006951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425006952 RNA polymerase factor sigma-70; Validated; Region: PRK09047 406425006953 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425006954 DNA binding residues [nucleotide binding] 406425006955 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 406425006956 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 406425006957 RDD family; Region: RDD; cl00746 406425006958 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 406425006959 putative active site [active] 406425006960 putative metal binding site [ion binding]; other site 406425006961 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425006962 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 406425006963 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 406425006964 Helix-turn-helix domains; Region: HTH; cl00088 406425006965 Bacterial transcriptional repressor; Region: TetR; pfam13972 406425006966 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425006967 short chain dehydrogenase; Provisional; Region: PRK06123 406425006968 classical (c) SDRs; Region: SDR_c; cd05233 406425006969 NAD(P) binding site [chemical binding]; other site 406425006970 active site 406425006971 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425006972 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 406425006973 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 406425006974 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 406425006975 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 406425006976 apolar tunnel; other site 406425006977 heme binding site [chemical binding]; other site 406425006978 dimerization interface [polypeptide binding]; other site 406425006979 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 406425006980 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 406425006981 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 406425006982 Domain of unknown function (DUF333); Region: DUF333; pfam03891 406425006983 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 406425006984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425006985 active site 406425006986 phosphorylation site [posttranslational modification] 406425006987 intermolecular recognition site; other site 406425006988 dimerization interface [polypeptide binding]; other site 406425006989 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425006990 DNA binding site [nucleotide binding] 406425006991 sensor protein KdpD; Provisional; Region: PRK10490 406425006992 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 406425006993 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 406425006994 Ligand Binding Site [chemical binding]; other site 406425006995 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 406425006996 GAF domain; Region: GAF; cl15785 406425006997 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425006998 dimer interface [polypeptide binding]; other site 406425006999 phosphorylation site [posttranslational modification] 406425007000 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007001 ATP binding site [chemical binding]; other site 406425007002 Mg2+ binding site [ion binding]; other site 406425007003 G-X-G motif; other site 406425007004 K+-transporting ATPase, c chain; Region: KdpC; cl00944 406425007005 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 406425007006 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425007007 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 406425007008 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 406425007009 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 406425007010 NADP binding site [chemical binding]; other site 406425007011 dimer interface [polypeptide binding]; other site 406425007012 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 406425007013 active site 406425007014 dimer interfaces [polypeptide binding]; other site 406425007015 catalytic residues [active] 406425007016 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425007017 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 406425007018 putative NAD(P) binding site [chemical binding]; other site 406425007019 putative active site [active] 406425007020 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425007021 active site 406425007022 Transcriptional regulator; Region: Transcrip_reg; cl00361 406425007023 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 406425007024 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 406425007025 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425007026 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 406425007027 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 406425007028 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 406425007029 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 406425007030 active site 406425007031 (T/H)XGH motif; other site 406425007032 Oligomerisation domain; Region: Oligomerisation; cl00519 406425007033 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 406425007034 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 406425007035 Maf-like protein; Region: Maf; pfam02545 406425007036 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 406425007037 active site 406425007038 dimer interface [polypeptide binding]; other site 406425007039 ribonuclease G; Provisional; Region: PRK11712 406425007040 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 406425007041 homodimer interface [polypeptide binding]; other site 406425007042 oligonucleotide binding site [chemical binding]; other site 406425007043 Protein with unknown function (DUF469); Region: DUF469; cl01237 406425007044 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 406425007045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425007046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 406425007047 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 406425007048 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 406425007049 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425007050 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 406425007051 Walker A/P-loop; other site 406425007052 ATP binding site [chemical binding]; other site 406425007053 Q-loop/lid; other site 406425007054 ABC transporter signature motif; other site 406425007055 Walker B; other site 406425007056 D-loop; other site 406425007057 H-loop/switch region; other site 406425007058 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 406425007059 putative metal binding site; other site 406425007060 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425007061 active site 406425007062 O-Antigen ligase; Region: Wzy_C; cl04850 406425007063 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425007064 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425007065 putative active site [active] 406425007066 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425007067 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425007068 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 406425007069 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 406425007070 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 406425007071 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 406425007072 generic binding surface II; other site 406425007073 generic binding surface I; other site 406425007074 rhodanese superfamily protein; Provisional; Region: PRK05320 406425007075 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 406425007076 active site residue [active] 406425007077 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425007078 active site 406425007079 HIGH motif; other site 406425007080 nucleotide binding site [chemical binding]; other site 406425007081 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425007082 active site 406425007083 KMSKS motif; other site 406425007084 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425007085 DEAD-like helicases superfamily; Region: DEXDc; smart00487 406425007086 ATP binding site [chemical binding]; other site 406425007087 Mg++ binding site [ion binding]; other site 406425007088 motif III; other site 406425007089 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425007090 nucleotide binding region [chemical binding]; other site 406425007091 ATP-binding site [chemical binding]; other site 406425007092 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 406425007093 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 406425007094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007095 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425007096 META domain; Region: META; cl01245 406425007097 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 406425007098 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 406425007099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425007100 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 406425007101 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 406425007102 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 406425007103 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 406425007104 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 406425007105 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 406425007106 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 406425007107 Helix-turn-helix domains; Region: HTH; cl00088 406425007108 ferredoxin; Provisional; Region: PRK06991 406425007109 Putative Fe-S cluster; Region: FeS; pfam04060 406425007110 4Fe-4S binding domain; Region: Fer4; cl02805 406425007111 endonuclease III; Provisional; Region: PRK10702 406425007112 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425007113 minor groove reading motif; other site 406425007114 helix-hairpin-helix signature motif; other site 406425007115 substrate binding pocket [chemical binding]; other site 406425007116 active site 406425007117 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 406425007118 EamA-like transporter family; Region: EamA; cl01037 406425007119 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425007120 EamA-like transporter family; Region: EamA; cl01037 406425007121 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 406425007122 Cytochrome c; Region: Cytochrom_C; cl11414 406425007123 Cytochrome c; Region: Cytochrom_C; cl11414 406425007124 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425007125 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425007126 Walker A motif; other site 406425007127 ATP binding site [chemical binding]; other site 406425007128 Walker B motif; other site 406425007129 arginine finger; other site 406425007130 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 406425007131 Benzoate membrane transport protein; Region: BenE; pfam03594 406425007132 benzoate transporter; Region: benE; TIGR00843 406425007133 transaldolase-like protein; Provisional; Region: PTZ00411 406425007134 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 406425007135 active site 406425007136 dimer interface [polypeptide binding]; other site 406425007137 catalytic residue [active] 406425007138 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 406425007139 dimer interface [polypeptide binding]; other site 406425007140 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425007141 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425007142 Na binding site [ion binding]; other site 406425007143 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 406425007144 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425007145 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425007146 flavoprotein, HI0933 family; Region: TIGR00275 406425007147 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 406425007148 putative active site [active] 406425007149 UTRA domain; Region: UTRA; cl01230 406425007150 heat shock protein 90; Provisional; Region: PRK05218 406425007151 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007152 ATP binding site [chemical binding]; other site 406425007153 Mg2+ binding site [ion binding]; other site 406425007154 G-X-G motif; other site 406425007155 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425007156 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425007157 DNA-binding site [nucleotide binding]; DNA binding site 406425007158 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425007159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007160 homodimer interface [polypeptide binding]; other site 406425007161 catalytic residue [active] 406425007162 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425007163 EamA-like transporter family; Region: EamA; cl01037 406425007164 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 406425007165 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425007166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007167 homodimer interface [polypeptide binding]; other site 406425007168 catalytic residue [active] 406425007169 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 406425007170 homotrimer interaction site [polypeptide binding]; other site 406425007171 putative active site [active] 406425007172 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 406425007173 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 406425007174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425007175 metal binding site [ion binding]; metal-binding site 406425007176 active site 406425007177 I-site; other site 406425007178 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425007179 Chromate transporter; Region: Chromate_transp; pfam02417 406425007180 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 406425007181 Chromate transporter; Region: Chromate_transp; pfam02417 406425007182 Predicted membrane protein [Function unknown]; Region: COG4125 406425007183 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425007184 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425007185 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425007186 Helix-turn-helix domains; Region: HTH; cl00088 406425007187 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425007188 dimerization interface [polypeptide binding]; other site 406425007189 Copper resistance protein D; Region: CopD; cl00563 406425007190 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 406425007191 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 406425007192 CAP-like domain; other site 406425007193 active site 406425007194 primary dimer interface [polypeptide binding]; other site 406425007195 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 406425007196 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 406425007197 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007198 ATP binding site [chemical binding]; other site 406425007199 Mg2+ binding site [ion binding]; other site 406425007200 G-X-G motif; other site 406425007201 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 406425007202 anchoring element; other site 406425007203 dimer interface [polypeptide binding]; other site 406425007204 ATP binding site [chemical binding]; other site 406425007205 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 406425007206 active site 406425007207 metal binding site [ion binding]; metal-binding site 406425007208 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 406425007209 ABC transporter ATPase component; Reviewed; Region: PRK11147 406425007210 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 406425007211 Walker A/P-loop; other site 406425007212 ATP binding site [chemical binding]; other site 406425007213 Q-loop/lid; other site 406425007214 ABC transporter signature motif; other site 406425007215 Walker B; other site 406425007216 D-loop; other site 406425007217 H-loop/switch region; other site 406425007218 ABC transporter; Region: ABC_tran_2; pfam12848 406425007219 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425007220 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 406425007221 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 406425007222 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425007223 S-adenosylmethionine binding site [chemical binding]; other site 406425007224 ferredoxin; Validated; Region: PRK07118 406425007225 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 406425007226 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425007227 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425007228 DNA binding residues [nucleotide binding] 406425007229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007230 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425007231 NAD(P) binding site [chemical binding]; other site 406425007232 active site 406425007233 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425007234 Helix-turn-helix domains; Region: HTH; cl00088 406425007235 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 406425007236 secondary substrate binding site; other site 406425007237 primary substrate binding site; other site 406425007238 inhibition loop; other site 406425007239 dimerization interface [polypeptide binding]; other site 406425007240 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425007241 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007242 putative substrate translocation pore; other site 406425007243 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425007244 AAA domain; Region: AAA_28; pfam13521 406425007245 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 406425007246 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 406425007247 active site 406425007248 homotetramer interface [polypeptide binding]; other site 406425007249 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425007250 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425007251 Walker A/P-loop; other site 406425007252 ATP binding site [chemical binding]; other site 406425007253 Q-loop/lid; other site 406425007254 ABC transporter signature motif; other site 406425007255 Walker B; other site 406425007256 D-loop; other site 406425007257 H-loop/switch region; other site 406425007258 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 406425007259 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 406425007260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007261 dimer interface [polypeptide binding]; other site 406425007262 conserved gate region; other site 406425007263 putative PBP binding loops; other site 406425007264 ABC-ATPase subunit interface; other site 406425007265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007266 dimer interface [polypeptide binding]; other site 406425007267 conserved gate region; other site 406425007268 putative PBP binding loops; other site 406425007269 ABC-ATPase subunit interface; other site 406425007270 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 406425007271 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425007272 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425007273 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425007274 dimer interface [polypeptide binding]; other site 406425007275 phosphorylation site [posttranslational modification] 406425007276 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425007277 ATP binding site [chemical binding]; other site 406425007278 Mg2+ binding site [ion binding]; other site 406425007279 G-X-G motif; other site 406425007280 osmolarity response regulator; Provisional; Region: ompR; PRK09468 406425007281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425007282 active site 406425007283 phosphorylation site [posttranslational modification] 406425007284 intermolecular recognition site; other site 406425007285 dimerization interface [polypeptide binding]; other site 406425007286 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425007287 DNA binding site [nucleotide binding] 406425007288 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 406425007289 Mitochondrial ribosomal protein subunit L20; Region: MRP-L20; pfam12824 406425007290 Pirin-related protein [General function prediction only]; Region: COG1741 406425007291 Cupin domain; Region: Cupin_2; cl09118 406425007292 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425007293 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425007294 substrate binding pocket [chemical binding]; other site 406425007295 membrane-bound complex binding site; other site 406425007296 hinge residues; other site 406425007297 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425007298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007299 dimer interface [polypeptide binding]; other site 406425007300 conserved gate region; other site 406425007301 putative PBP binding loops; other site 406425007302 ABC-ATPase subunit interface; other site 406425007303 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425007304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007305 dimer interface [polypeptide binding]; other site 406425007306 conserved gate region; other site 406425007307 putative PBP binding loops; other site 406425007308 ABC-ATPase subunit interface; other site 406425007309 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425007310 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425007311 Walker A/P-loop; other site 406425007312 ATP binding site [chemical binding]; other site 406425007313 Q-loop/lid; other site 406425007314 ABC transporter signature motif; other site 406425007315 Walker B; other site 406425007316 D-loop; other site 406425007317 H-loop/switch region; other site 406425007318 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425007319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425007320 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 406425007321 putative substrate binding pocket [chemical binding]; other site 406425007322 dimerization interface [polypeptide binding]; other site 406425007323 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425007324 trimer interface [polypeptide binding]; other site 406425007325 eyelet of channel; other site 406425007326 Nitrogen regulatory protein P-II; Region: P-II; cl00412 406425007327 Nitrogen regulatory protein P-II; Region: P-II; smart00938 406425007328 NAD synthetase; Provisional; Region: PRK13981 406425007329 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 406425007330 multimer interface [polypeptide binding]; other site 406425007331 active site 406425007332 catalytic triad [active] 406425007333 protein interface 1 [polypeptide binding]; other site 406425007334 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 406425007335 homodimer interface [polypeptide binding]; other site 406425007336 NAD binding pocket [chemical binding]; other site 406425007337 ATP binding pocket [chemical binding]; other site 406425007338 Mg binding site [ion binding]; other site 406425007339 active-site loop [active] 406425007340 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425007341 Protein of unknown function, DUF482; Region: DUF482; pfam04339 406425007342 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 406425007343 Probable beta-xylosidase; Provisional; Region: PLN03080 406425007344 Fibronectin type III-like domain; Region: Fn3-like; cl15273 406425007345 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425007346 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425007347 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 406425007348 GIY-YIG motif/motif A; other site 406425007349 putative active site [active] 406425007350 putative metal binding site [ion binding]; other site 406425007351 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 406425007352 dimer interface [polypeptide binding]; other site 406425007353 substrate binding site [chemical binding]; other site 406425007354 metal binding sites [ion binding]; metal-binding site 406425007355 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425007356 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 406425007357 NAD(P) binding site [chemical binding]; other site 406425007358 catalytic residues [active] 406425007359 catalytic residues [active] 406425007360 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 406425007361 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425007362 putative NAD(P) binding site [chemical binding]; other site 406425007363 active site 406425007364 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425007365 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007366 putative substrate translocation pore; other site 406425007367 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 406425007368 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425007369 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 406425007370 hemY protein; Region: hemY_coli; TIGR00540 406425007371 HemY protein N-terminus; Region: HemY_N; pfam07219 406425007372 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425007373 TPR motif; other site 406425007374 binding surface 406425007375 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 406425007376 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 406425007377 active site 406425007378 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 406425007379 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 406425007380 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 406425007381 domain interfaces; other site 406425007382 active site 406425007383 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 406425007384 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 406425007385 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 406425007386 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425007387 S-adenosylmethionine binding site [chemical binding]; other site 406425007388 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425007389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425007390 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425007391 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425007392 argininosuccinate lyase; Provisional; Region: PRK00855 406425007393 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 406425007394 active sites [active] 406425007395 tetramer interface [polypeptide binding]; other site 406425007396 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425007397 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425007398 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425007399 motif II; other site 406425007400 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425007401 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425007402 arginine decarboxylase; Provisional; Region: PRK15029 406425007403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 406425007404 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425007405 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425007406 catalytic residue [active] 406425007407 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 406425007408 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 406425007409 trimer interface [polypeptide binding]; other site 406425007410 active site 406425007411 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cl00891 406425007412 E-class dimer interface [polypeptide binding]; other site 406425007413 P-class dimer interface [polypeptide binding]; other site 406425007414 active site 406425007415 Cu2+ binding site [ion binding]; other site 406425007416 Zn2+ binding site [ion binding]; other site 406425007417 Domain of unknown function DUF59; Region: DUF59; cl00941 406425007418 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 406425007419 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 406425007420 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425007421 ligand binding site [chemical binding]; other site 406425007422 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 406425007423 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 406425007424 active site 406425007425 HIGH motif; other site 406425007426 KMSKS motif; other site 406425007427 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 406425007428 tRNA binding surface [nucleotide binding]; other site 406425007429 anticodon binding site; other site 406425007430 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 406425007431 dimer interface [polypeptide binding]; other site 406425007432 putative tRNA-binding site [nucleotide binding]; other site 406425007433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 406425007434 Family of unknown function (DUF490); Region: DUF490; pfam04357 406425007435 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 406425007436 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425007437 Surface antigen; Region: Bac_surface_Ag; cl03097 406425007438 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 406425007439 ScpA/B protein; Region: ScpA_ScpB; cl00598 406425007440 pantoate--beta-alanine ligase; Region: panC; TIGR00018 406425007441 Pantoate-beta-alanine ligase; Region: PanC; cd00560 406425007442 active site 406425007443 ATP-binding site [chemical binding]; other site 406425007444 pantoate-binding site; other site 406425007445 HXXH motif; other site 406425007446 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 406425007447 tetramerization interface [polypeptide binding]; other site 406425007448 active site 406425007449 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 406425007450 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425007451 P-loop; other site 406425007452 Magnesium ion binding site [ion binding]; other site 406425007453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425007454 DoxX; Region: DoxX; cl00976 406425007455 cobyric acid synthase; Provisional; Region: PRK00784 406425007456 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425007457 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 406425007458 catalytic triad [active] 406425007459 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 406425007460 homotrimer interface [polypeptide binding]; other site 406425007461 Walker A motif; other site 406425007462 GTP binding site [chemical binding]; other site 406425007463 Walker B motif; other site 406425007464 CobD/Cbib protein; Region: CobD_Cbib; cl00561 406425007465 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 406425007466 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425007467 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425007468 catalytic residue [active] 406425007469 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 406425007470 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 406425007471 cobalamin binding residues [chemical binding]; other site 406425007472 putative BtuC binding residues; other site 406425007473 dimer interface [polypeptide binding]; other site 406425007474 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425007475 catalytic core [active] 406425007476 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 406425007477 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 406425007478 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 406425007479 putative dimer interface [polypeptide binding]; other site 406425007480 active site pocket [active] 406425007481 putative cataytic base [active] 406425007482 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425007483 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 406425007484 Walker A/P-loop; other site 406425007485 ATP binding site [chemical binding]; other site 406425007486 Q-loop/lid; other site 406425007487 ABC transporter signature motif; other site 406425007488 Walker B; other site 406425007489 D-loop; other site 406425007490 H-loop/switch region; other site 406425007491 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425007492 ABC-ATPase subunit interface; other site 406425007493 dimer interface [polypeptide binding]; other site 406425007494 putative PBP binding regions; other site 406425007495 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 406425007496 Cell division protein ZapA; Region: ZapA; cl01146 406425007497 EVE domain; Region: EVE; cl00728 406425007498 Protein of unknown function (DUF541); Region: SIMPL; cl01077 406425007499 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 406425007500 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425007501 Helix-turn-helix domains; Region: HTH; cl00088 406425007502 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 406425007503 putative dimerization interface [polypeptide binding]; other site 406425007504 putative substrate binding pocket [chemical binding]; other site 406425007505 Dehydratase family; Region: ILVD_EDD; cl00340 406425007506 Cytochrome c; Region: Cytochrom_C; cl11414 406425007507 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 406425007508 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 406425007509 multifunctional aminopeptidase A; Provisional; Region: PRK00913 406425007510 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 406425007511 interface (dimer of trimers) [polypeptide binding]; other site 406425007512 Substrate-binding/catalytic site; other site 406425007513 Zn-binding sites [ion binding]; other site 406425007514 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 406425007515 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 406425007516 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 406425007517 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 406425007518 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 406425007519 putative active site [active] 406425007520 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425007521 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 406425007522 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 406425007523 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 406425007524 CysD dimerization site [polypeptide binding]; other site 406425007525 G1 box; other site 406425007526 putative GEF interaction site [polypeptide binding]; other site 406425007527 GTP/Mg2+ binding site [chemical binding]; other site 406425007528 Switch I region; other site 406425007529 G2 box; other site 406425007530 G3 box; other site 406425007531 Switch II region; other site 406425007532 G4 box; other site 406425007533 G5 box; other site 406425007534 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 406425007535 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 406425007536 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 406425007537 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 406425007538 Active Sites [active] 406425007539 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425007540 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 406425007541 Active Sites [active] 406425007542 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 406425007543 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 406425007544 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425007545 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425007546 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 406425007547 Helix-turn-helix domains; Region: HTH; cl00088 406425007548 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 406425007549 substrate binding site [chemical binding]; other site 406425007550 dimerization interface [polypeptide binding]; other site 406425007551 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 406425007552 putative ligand binding site [chemical binding]; other site 406425007553 integrase; Provisional; Region: PRK09692 406425007554 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 406425007555 active site 406425007556 Int/Topo IB signature motif; other site 406425007557 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 406425007558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 406425007559 Domain of unknown function (DUF927); Region: DUF927; cl12098 406425007560 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 406425007561 multiple promoter invertase; Provisional; Region: mpi; PRK13413 406425007562 catalytic residues [active] 406425007563 catalytic nucleophile [active] 406425007564 Presynaptic Site I dimer interface [polypeptide binding]; other site 406425007565 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 406425007566 Synaptic Flat tetramer interface [polypeptide binding]; other site 406425007567 Synaptic Site I dimer interface [polypeptide binding]; other site 406425007568 DNA binding site [nucleotide binding] 406425007569 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 406425007570 DNA-binding interface [nucleotide binding]; DNA binding site 406425007571 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 406425007572 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 406425007573 putative NAD(P) binding site [chemical binding]; other site 406425007574 active site 406425007575 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425007576 Helix-turn-helix domains; Region: HTH; cl00088 406425007577 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 406425007578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007579 Helix-turn-helix domains; Region: HTH; cl00088 406425007580 transcriptional activator TtdR; Provisional; Region: PRK09801 406425007581 Helix-turn-helix domains; Region: HTH; cl00088 406425007582 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 406425007583 putative effector binding pocket; other site 406425007584 putative dimerization interface [polypeptide binding]; other site 406425007585 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425007586 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 406425007587 putative active site pocket [active] 406425007588 metal binding site [ion binding]; metal-binding site 406425007589 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425007590 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425007591 transcriptional activator TtdR; Provisional; Region: PRK09801 406425007592 Helix-turn-helix domains; Region: HTH; cl00088 406425007593 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425007594 putative effector binding pocket; other site 406425007595 dimerization interface [polypeptide binding]; other site 406425007596 short chain dehydrogenase; Provisional; Region: PRK12937 406425007597 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 406425007598 NADP binding site [chemical binding]; other site 406425007599 homodimer interface [polypeptide binding]; other site 406425007600 active site 406425007601 substrate binding site [chemical binding]; other site 406425007602 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425007603 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425007604 NADP binding site [chemical binding]; other site 406425007605 active site 406425007606 steroid binding site; other site 406425007607 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425007608 Helix-turn-helix domains; Region: HTH; cl00088 406425007609 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425007610 dimerization interface [polypeptide binding]; other site 406425007611 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425007612 Helix-turn-helix domains; Region: HTH; cl00088 406425007613 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425007614 putative effector binding pocket; other site 406425007615 putative dimerization interface [polypeptide binding]; other site 406425007616 short chain dehydrogenase; Provisional; Region: PRK12744 406425007617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007618 NAD(P) binding site [chemical binding]; other site 406425007619 active site 406425007620 DinB superfamily; Region: DinB_2; pfam12867 406425007621 Bacterial Ig-like domain; Region: Big_5; cl01012 406425007622 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 406425007623 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 406425007624 active site 406425007625 uracil binding [chemical binding]; other site 406425007626 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425007627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007628 NAD(P) binding site [chemical binding]; other site 406425007629 active site 406425007630 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 406425007631 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425007632 catalytic loop [active] 406425007633 iron binding site [ion binding]; other site 406425007634 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 406425007635 FAD binding pocket [chemical binding]; other site 406425007636 FAD binding motif [chemical binding]; other site 406425007637 phosphate binding motif [ion binding]; other site 406425007638 beta-alpha-beta structure motif; other site 406425007639 NAD binding pocket [chemical binding]; other site 406425007640 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 406425007641 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425007642 inhibitor-cofactor binding pocket; inhibition site 406425007643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425007644 catalytic residue [active] 406425007645 putative acetyltransferase; Provisional; Region: PRK03624 406425007646 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425007647 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 406425007648 Uncharacterized conserved protein [Function unknown]; Region: COG5634 406425007649 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425007650 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425007651 Walker A/P-loop; other site 406425007652 ATP binding site [chemical binding]; other site 406425007653 Q-loop/lid; other site 406425007654 ABC transporter signature motif; other site 406425007655 Walker B; other site 406425007656 D-loop; other site 406425007657 H-loop/switch region; other site 406425007658 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425007659 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425007660 Walker A/P-loop; other site 406425007661 ATP binding site [chemical binding]; other site 406425007662 Q-loop/lid; other site 406425007663 ABC transporter signature motif; other site 406425007664 Walker B; other site 406425007665 D-loop; other site 406425007666 H-loop/switch region; other site 406425007667 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425007668 TM-ABC transporter signature motif; other site 406425007669 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425007670 TM-ABC transporter signature motif; other site 406425007671 LytB protein; Region: LYTB; cl00507 406425007672 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 406425007673 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 406425007674 hypothetical protein; Reviewed; Region: PRK00024 406425007675 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 406425007676 MPN+ (JAMM) motif; other site 406425007677 Zinc-binding site [ion binding]; other site 406425007678 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 406425007679 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 406425007680 L-aspartate oxidase; Provisional; Region: PRK09077 406425007681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007682 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 406425007683 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 406425007684 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 406425007685 dimerization interface [polypeptide binding]; other site 406425007686 active site 406425007687 Quinolinate synthetase A protein; Region: NadA; cl00420 406425007688 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 406425007689 Di-iron ligands [ion binding]; other site 406425007690 Transposase; Region: DDE_Tnp_ISL3; pfam01610 406425007691 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425007692 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425007693 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 406425007694 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425007695 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 406425007696 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 406425007697 active site 406425007698 substrate binding site [chemical binding]; other site 406425007699 cosubstrate binding site; other site 406425007700 catalytic site [active] 406425007701 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 406425007702 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 406425007703 active site 406425007704 Riboflavin kinase; Region: Flavokinase; cl03312 406425007705 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 406425007706 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425007707 active site 406425007708 HIGH motif; other site 406425007709 nucleotide binding site [chemical binding]; other site 406425007710 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 406425007711 active site 406425007712 KMSKS motif; other site 406425007713 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 406425007714 tRNA binding surface [nucleotide binding]; other site 406425007715 anticodon binding site; other site 406425007716 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 406425007717 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 406425007718 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 406425007719 Flavoprotein; Region: Flavoprotein; cl08021 406425007720 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 406425007721 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 406425007722 trimer interface [polypeptide binding]; other site 406425007723 active site 406425007724 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 406425007725 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 406425007726 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 406425007727 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 406425007728 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 406425007729 Clp amino terminal domain; Region: Clp_N; pfam02861 406425007730 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425007731 Walker A motif; other site 406425007732 ATP binding site [chemical binding]; other site 406425007733 Walker B motif; other site 406425007734 arginine finger; other site 406425007735 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425007736 Walker A motif; other site 406425007737 ATP binding site [chemical binding]; other site 406425007738 Walker B motif; other site 406425007739 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425007740 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 406425007741 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 406425007742 DNA-binding site [nucleotide binding]; DNA binding site 406425007743 RNA-binding motif; other site 406425007744 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 406425007745 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425007746 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425007747 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 406425007748 isocitrate dehydrogenase; Validated; Region: PRK07362 406425007749 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 406425007750 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 406425007751 pseudouridine synthase; Region: TIGR00093 406425007752 active site 406425007753 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 406425007754 elongation factor G; Reviewed; Region: PRK00007 406425007755 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 406425007756 G1 box; other site 406425007757 putative GEF interaction site [polypeptide binding]; other site 406425007758 GTP/Mg2+ binding site [chemical binding]; other site 406425007759 Switch I region; other site 406425007760 G2 box; other site 406425007761 G3 box; other site 406425007762 Switch II region; other site 406425007763 G4 box; other site 406425007764 G5 box; other site 406425007765 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 406425007766 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 406425007767 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 406425007768 High-affinity nickel-transport protein; Region: NicO; cl00964 406425007769 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425007770 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425007771 active site 406425007772 catalytic tetrad [active] 406425007773 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425007774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425007775 DNA-binding site [nucleotide binding]; DNA binding site 406425007776 UTRA domain; Region: UTRA; cl01230 406425007777 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425007778 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425007779 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 406425007780 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 406425007781 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 406425007782 dimer interface [polypeptide binding]; other site 406425007783 active site 406425007784 oxalacetate/citrate binding site [chemical binding]; other site 406425007785 citrylCoA binding site [chemical binding]; other site 406425007786 coenzyme A binding site [chemical binding]; other site 406425007787 catalytic triad [active] 406425007788 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 406425007789 putative transporter; Provisional; Region: PRK10504 406425007790 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007791 putative substrate translocation pore; other site 406425007792 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425007793 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425007794 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 406425007795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007796 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425007797 Protein of unknown function (DUF962); Region: DUF962; cl01879 406425007798 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425007799 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425007800 ligand binding site [chemical binding]; other site 406425007801 flexible hinge region; other site 406425007802 Helix-turn-helix domains; Region: HTH; cl00088 406425007803 Chromate transporter; Region: Chromate_transp; pfam02417 406425007804 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 406425007805 Chromate transporter; Region: Chromate_transp; pfam02417 406425007806 superoxide dismutase; Provisional; Region: PRK10543 406425007807 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 406425007808 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 406425007809 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 406425007810 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 406425007811 generic binding surface II; other site 406425007812 generic binding surface I; other site 406425007813 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 406425007814 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 406425007815 Trm112p-like protein; Region: Trm112p; cl01066 406425007816 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 406425007817 Ligand binding site; other site 406425007818 oligomer interface; other site 406425007819 adenylate kinase; Reviewed; Region: adk; PRK00279 406425007820 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 406425007821 AMP-binding site [chemical binding]; other site 406425007822 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 406425007823 Uncharacterized conserved protein [Function unknown]; Region: COG2912 406425007824 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 406425007825 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 406425007826 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 406425007827 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 406425007828 ornithine carbamoyltransferase; Provisional; Region: PRK00779 406425007829 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 406425007830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007831 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 406425007832 FAD binding domain; Region: FAD_binding_4; pfam01565 406425007833 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 406425007834 Protein of unknown function (DUF520); Region: DUF520; cl00723 406425007835 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 406425007836 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 406425007837 putative deacylase active site [active] 406425007838 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425007839 AMP-binding enzyme; Region: AMP-binding; cl15778 406425007840 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425007841 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 406425007842 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 406425007843 active site 406425007844 Int/Topo IB signature motif; other site 406425007845 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 406425007846 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 406425007847 DNA binding site [nucleotide binding] 406425007848 active site 406425007849 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 406425007850 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 406425007851 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 406425007852 AMIN domain; Region: AMIN; pfam11741 406425007853 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 406425007854 active site 406425007855 metal binding site [ion binding]; metal-binding site 406425007856 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 406425007857 EamA-like transporter family; Region: EamA; cl01037 406425007858 EamA-like transporter family; Region: EamA; cl01037 406425007859 Pirin-related protein [General function prediction only]; Region: COG1741 406425007860 Cupin domain; Region: Cupin_2; cl09118 406425007861 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 406425007862 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 406425007863 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 406425007864 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 406425007865 putative ATP binding site [chemical binding]; other site 406425007866 putative substrate interface [chemical binding]; other site 406425007867 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 406425007868 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425007869 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 406425007870 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 406425007871 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425007872 S-adenosylmethionine binding site [chemical binding]; other site 406425007873 Protein of unknown function DUF72; Region: DUF72; cl00777 406425007874 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 406425007875 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 406425007876 Flavin Reductases; Region: FlaRed; cl00801 406425007877 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425007878 Helix-turn-helix domains; Region: HTH; cl00088 406425007879 AsnC family; Region: AsnC_trans_reg; pfam01037 406425007880 Putative cyclase; Region: Cyclase; cl00814 406425007881 kynureninase; Region: kynureninase; TIGR01814 406425007882 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425007883 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425007884 catalytic residue [active] 406425007885 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 406425007886 benzoate transport; Region: 2A0115; TIGR00895 406425007887 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007888 putative substrate translocation pore; other site 406425007889 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 406425007890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007891 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425007892 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425007893 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 406425007894 NAD(P) binding site [chemical binding]; other site 406425007895 catalytic residues [active] 406425007896 benzoylformate decarboxylase; Reviewed; Region: PRK07092 406425007897 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425007898 PYR/PP interface [polypeptide binding]; other site 406425007899 dimer interface [polypeptide binding]; other site 406425007900 TPP binding site [chemical binding]; other site 406425007901 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425007902 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 406425007903 TPP-binding site [chemical binding]; other site 406425007904 dimer interface [polypeptide binding]; other site 406425007905 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425007906 Helix-turn-helix domains; Region: HTH; cl00088 406425007907 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 406425007908 putative dimerization interface [polypeptide binding]; other site 406425007909 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 406425007910 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 406425007911 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 406425007912 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 406425007913 N- and C-terminal domain interface [polypeptide binding]; other site 406425007914 D-xylulose kinase; Region: XylB; TIGR01312 406425007915 active site 406425007916 catalytic site [active] 406425007917 metal binding site [ion binding]; metal-binding site 406425007918 xylulose binding site [chemical binding]; other site 406425007919 putative ATP binding site [chemical binding]; other site 406425007920 homodimer interface [polypeptide binding]; other site 406425007921 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 406425007922 Helix-turn-helix domains; Region: HTH; cl00088 406425007923 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 406425007924 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425007925 putative substrate translocation pore; other site 406425007926 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425007927 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425007928 Helix-turn-helix domains; Region: HTH; cl00088 406425007929 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 406425007930 putative effector binding pocket; other site 406425007931 putative dimerization interface [polypeptide binding]; other site 406425007932 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 406425007933 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 406425007934 Walker A/P-loop; other site 406425007935 ATP binding site [chemical binding]; other site 406425007936 Q-loop/lid; other site 406425007937 ABC transporter signature motif; other site 406425007938 Walker B; other site 406425007939 D-loop; other site 406425007940 H-loop/switch region; other site 406425007941 TOBE domain; Region: TOBE_2; cl01440 406425007942 TOBE domain; Region: TOBE_2; cl01440 406425007943 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425007944 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425007945 motif II; other site 406425007946 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425007947 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007948 dimer interface [polypeptide binding]; other site 406425007949 conserved gate region; other site 406425007950 putative PBP binding loops; other site 406425007951 ABC-ATPase subunit interface; other site 406425007952 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425007953 dimer interface [polypeptide binding]; other site 406425007954 conserved gate region; other site 406425007955 putative PBP binding loops; other site 406425007956 ABC-ATPase subunit interface; other site 406425007957 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425007958 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425007959 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 406425007960 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 406425007961 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425007962 substrate binding site [chemical binding]; other site 406425007963 ATP binding site [chemical binding]; other site 406425007964 sorbitol dehydrogenase; Provisional; Region: PRK07067 406425007965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425007966 NAD(P) binding site [chemical binding]; other site 406425007967 active site 406425007968 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 406425007969 metal binding site 2 [ion binding]; metal-binding site 406425007970 putative DNA binding helix; other site 406425007971 metal binding site 1 [ion binding]; metal-binding site 406425007972 dimer interface [polypeptide binding]; other site 406425007973 structural Zn2+ binding site [ion binding]; other site 406425007974 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 406425007975 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 406425007976 metal binding site [ion binding]; metal-binding site 406425007977 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 406425007978 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 406425007979 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 406425007980 Predicted esterase [General function prediction only]; Region: COG0627 406425007981 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425007982 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 406425007983 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 406425007984 substrate binding site [chemical binding]; other site 406425007985 catalytic Zn binding site [ion binding]; other site 406425007986 NAD binding site [chemical binding]; other site 406425007987 structural Zn binding site [ion binding]; other site 406425007988 dimer interface [polypeptide binding]; other site 406425007989 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 406425007990 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 406425007991 N- and C-terminal domain interface [polypeptide binding]; other site 406425007992 active site 406425007993 MgATP binding site [chemical binding]; other site 406425007994 catalytic site [active] 406425007995 metal binding site [ion binding]; metal-binding site 406425007996 carbohydrate binding site [chemical binding]; other site 406425007997 xanthine permease; Region: pbuX; TIGR03173 406425007998 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 406425007999 ligand binding site [chemical binding]; other site 406425008000 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 406425008001 putative active site [active] 406425008002 putative Zn binding site [ion binding]; other site 406425008003 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 406425008004 PAAR motif; Region: PAAR_motif; cl15808 406425008005 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 406425008006 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425008007 Protein export membrane protein; Region: SecD_SecF; cl14618 406425008008 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425008009 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 406425008010 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425008011 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425008012 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 406425008013 Helix-turn-helix domains; Region: HTH; cl00088 406425008014 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 406425008015 Isochorismatase family; Region: Isochorismatase; pfam00857 406425008016 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425008017 catalytic triad [active] 406425008018 conserved cis-peptide bond; other site 406425008019 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 406425008020 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425008021 conserved cys residue [active] 406425008022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425008023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425008024 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425008025 hydrophobic ligand binding site; other site 406425008026 Domain of unknown function (DUF427); Region: DUF427; cl00998 406425008027 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 406425008028 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 406425008029 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 406425008030 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425008031 protein binding site [polypeptide binding]; other site 406425008032 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425008033 protein binding site [polypeptide binding]; other site 406425008034 sensor protein QseC; Provisional; Region: PRK10337 406425008035 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425008036 dimer interface [polypeptide binding]; other site 406425008037 phosphorylation site [posttranslational modification] 406425008038 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425008039 ATP binding site [chemical binding]; other site 406425008040 Mg2+ binding site [ion binding]; other site 406425008041 G-X-G motif; other site 406425008042 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 406425008043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425008044 active site 406425008045 phosphorylation site [posttranslational modification] 406425008046 intermolecular recognition site; other site 406425008047 dimerization interface [polypeptide binding]; other site 406425008048 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425008049 DNA binding site [nucleotide binding] 406425008050 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 406425008051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425008052 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 406425008053 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 406425008054 active site 406425008055 catalytic triad [active] 406425008056 oxyanion hole [active] 406425008057 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 406425008058 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 406425008059 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 406425008060 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425008061 AIR carboxylase; Region: AIRC; cl00310 406425008062 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 406425008063 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 406425008064 ATP binding site [chemical binding]; other site 406425008065 active site 406425008066 substrate binding site [chemical binding]; other site 406425008067 hypothetical protein; Provisional; Region: PRK08185 406425008068 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 406425008069 intersubunit interface [polypeptide binding]; other site 406425008070 active site 406425008071 zinc binding site [ion binding]; other site 406425008072 Na+ binding site [ion binding]; other site 406425008073 pyruvate kinase; Provisional; Region: PRK05826 406425008074 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425008075 domain interfaces; other site 406425008076 active site 406425008077 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 406425008078 Phosphoglycerate kinase; Region: PGK; pfam00162 406425008079 substrate binding site [chemical binding]; other site 406425008080 hinge regions; other site 406425008081 ADP binding site [chemical binding]; other site 406425008082 catalytic site [active] 406425008083 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 406425008084 AzlC protein; Region: AzlC; cl00570 406425008085 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 406425008086 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 406425008087 homodimer interface [polypeptide binding]; other site 406425008088 substrate-cofactor binding pocket; other site 406425008089 catalytic residue [active] 406425008090 Zinc-finger domain; Region: zf-CHCC; cl01821 406425008091 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425008092 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425008093 putative active site [active] 406425008094 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425008095 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 406425008096 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 406425008097 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 406425008098 Peptidase family M48; Region: Peptidase_M48; cl12018 406425008099 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 406425008100 trimer interface [polypeptide binding]; other site 406425008101 dimer interface [polypeptide binding]; other site 406425008102 putative active site [active] 406425008103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425008104 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425008105 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425008106 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425008107 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425008108 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425008109 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425008110 O-Antigen ligase; Region: Wzy_C; cl04850 406425008111 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 406425008112 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 406425008113 Pilin (bacterial filament); Region: Pilin; pfam00114 406425008114 Integral membrane protein TerC family; Region: TerC; cl10468 406425008115 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 406425008116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008117 CoA-ligase; Region: Ligase_CoA; cl02894 406425008118 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 406425008119 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425008120 CoA-ligase; Region: Ligase_CoA; cl02894 406425008121 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 406425008122 RecX family; Region: RecX; cl00936 406425008123 recombinase A; Provisional; Region: recA; PRK09354 406425008124 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 406425008125 hexamer interface [polypeptide binding]; other site 406425008126 Walker A motif; other site 406425008127 ATP binding site [chemical binding]; other site 406425008128 Walker B motif; other site 406425008129 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 406425008130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425008131 active site 406425008132 phosphorylation site [posttranslational modification] 406425008133 intermolecular recognition site; other site 406425008134 dimerization interface [polypeptide binding]; other site 406425008135 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425008136 DNA binding site [nucleotide binding] 406425008137 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425008138 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425008139 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425008140 dimer interface [polypeptide binding]; other site 406425008141 phosphorylation site [posttranslational modification] 406425008142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425008143 ATP binding site [chemical binding]; other site 406425008144 Mg2+ binding site [ion binding]; other site 406425008145 G-X-G motif; other site 406425008146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008147 putative substrate translocation pore; other site 406425008148 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425008149 transcriptional regulator; Provisional; Region: PRK10632 406425008150 Helix-turn-helix domains; Region: HTH; cl00088 406425008151 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425008152 putative effector binding pocket; other site 406425008153 putative dimerization interface [polypeptide binding]; other site 406425008154 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425008155 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425008156 conserved cys residue [active] 406425008157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425008158 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 406425008159 DJ-1 family protein; Region: not_thiJ; TIGR01383 406425008160 conserved cys residue [active] 406425008161 Cupin domain; Region: Cupin_2; cl09118 406425008162 PAAR motif; Region: PAAR_motif; cl15808 406425008163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425008164 Helix-turn-helix domains; Region: HTH; cl00088 406425008165 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425008166 putative effector binding pocket; other site 406425008167 dimerization interface [polypeptide binding]; other site 406425008168 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 406425008169 Transglycosylase; Region: Transgly; cl07896 406425008170 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 406425008171 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 406425008172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 406425008173 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 406425008174 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425008175 DNA-binding site [nucleotide binding]; DNA binding site 406425008176 FCD domain; Region: FCD; cl11656 406425008177 galactonate dehydratase; Provisional; Region: PRK14017 406425008178 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 406425008179 putative active site pocket [active] 406425008180 putative metal binding site [ion binding]; other site 406425008181 Copper resistance protein D; Region: CopD; cl00563 406425008182 Cytochrome c; Region: Cytochrom_C; cl11414 406425008183 Cytochrome c; Region: Cytochrom_C; cl11414 406425008184 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425008185 Cytochrome c; Region: Cytochrom_C; cl11414 406425008186 helicase 45; Provisional; Region: PTZ00424 406425008187 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425008188 ATP binding site [chemical binding]; other site 406425008189 Mg++ binding site [ion binding]; other site 406425008190 motif III; other site 406425008191 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425008192 nucleotide binding region [chemical binding]; other site 406425008193 ATP-binding site [chemical binding]; other site 406425008194 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 406425008195 dinuclear metal binding motif [ion binding]; other site 406425008196 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 406425008197 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425008198 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 406425008199 Helix-turn-helix domains; Region: HTH; cl00088 406425008200 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425008201 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 406425008202 glycerol kinase; Provisional; Region: glpK; PRK00047 406425008203 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 406425008204 N- and C-terminal domain interface [polypeptide binding]; other site 406425008205 active site 406425008206 MgATP binding site [chemical binding]; other site 406425008207 catalytic site [active] 406425008208 metal binding site [ion binding]; metal-binding site 406425008209 glycerol binding site [chemical binding]; other site 406425008210 homotetramer interface [polypeptide binding]; other site 406425008211 homodimer interface [polypeptide binding]; other site 406425008212 FBP binding site [chemical binding]; other site 406425008213 protein IIAGlc interface [polypeptide binding]; other site 406425008214 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 406425008215 amphipathic channel; other site 406425008216 Asn-Pro-Ala signature motifs; other site 406425008217 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 406425008218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425008219 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 406425008220 [2Fe-2S] cluster binding site [ion binding]; other site 406425008221 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 406425008222 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 406425008223 putative di-iron ligands [ion binding]; other site 406425008224 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425008225 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 406425008226 putative ligand binding site [chemical binding]; other site 406425008227 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 406425008228 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 406425008229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008230 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 406425008231 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425008232 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425008233 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 406425008234 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425008235 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425008236 non-specific DNA binding site [nucleotide binding]; other site 406425008237 salt bridge; other site 406425008238 sequence-specific DNA binding site [nucleotide binding]; other site 406425008239 Cupin domain; Region: Cupin_2; cl09118 406425008240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008241 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425008242 putative substrate translocation pore; other site 406425008243 transcriptional regulator; Provisional; Region: PRK10632 406425008244 Helix-turn-helix domains; Region: HTH; cl00088 406425008245 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425008246 putative effector binding pocket; other site 406425008247 dimerization interface [polypeptide binding]; other site 406425008248 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 406425008249 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 406425008250 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425008251 FeS/SAM binding site; other site 406425008252 TRAM domain; Region: TRAM; cl01282 406425008253 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 406425008254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425008255 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 406425008256 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 406425008257 putative active site pocket [active] 406425008258 dimerization interface [polypeptide binding]; other site 406425008259 putative catalytic residue [active] 406425008260 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 406425008261 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 406425008262 Transporter associated domain; Region: CorC_HlyC; cl08393 406425008263 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 406425008264 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 406425008265 putative active site [active] 406425008266 catalytic triad [active] 406425008267 putative dimer interface [polypeptide binding]; other site 406425008268 TPR repeat; Region: TPR_11; pfam13414 406425008269 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008270 binding surface 406425008271 TPR motif; other site 406425008272 TPR repeat; Region: TPR_11; pfam13414 406425008273 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425008274 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425008275 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 406425008276 dimer interface [polypeptide binding]; other site 406425008277 motif 1; other site 406425008278 active site 406425008279 motif 2; other site 406425008280 motif 3; other site 406425008281 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 406425008282 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 406425008283 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 406425008284 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425008285 active site 406425008286 motif I; other site 406425008287 motif II; other site 406425008288 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 406425008289 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 406425008290 putative acyl-acceptor binding pocket; other site 406425008291 Protein of unknown function DUF45; Region: DUF45; cl00636 406425008292 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425008293 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 406425008294 dimer interface [polypeptide binding]; other site 406425008295 active site 406425008296 metal binding site [ion binding]; metal-binding site 406425008297 glutathione binding site [chemical binding]; other site 406425008298 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425008299 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 406425008300 SurA N-terminal domain; Region: SurA_N_3; cl07813 406425008301 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 406425008302 PPIC-type PPIASE domain; Region: Rotamase; cl08278 406425008303 PPIC-type PPIASE domain; Region: Rotamase; cl08278 406425008304 Organic solvent tolerance protein; Region: OstA_C; pfam04453 406425008305 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425008306 Phosphotransferase enzyme family; Region: APH; pfam01636 406425008307 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 406425008308 Substrate binding site; other site 406425008309 metal-binding site 406425008310 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425008311 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 406425008312 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 406425008313 Walker A/P-loop; other site 406425008314 ATP binding site [chemical binding]; other site 406425008315 Q-loop/lid; other site 406425008316 ABC transporter signature motif; other site 406425008317 Walker B; other site 406425008318 D-loop; other site 406425008319 H-loop/switch region; other site 406425008320 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 406425008321 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 406425008322 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 406425008323 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425008324 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425008325 substrate binding site [chemical binding]; other site 406425008326 oxyanion hole (OAH) forming residues; other site 406425008327 trimer interface [polypeptide binding]; other site 406425008328 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 406425008329 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 406425008330 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425008331 dimer interface [polypeptide binding]; other site 406425008332 active site 406425008333 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 406425008334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008335 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425008336 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425008337 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425008338 substrate binding site [chemical binding]; other site 406425008339 oxyanion hole (OAH) forming residues; other site 406425008340 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 406425008341 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 406425008342 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 406425008343 FAD binding site [chemical binding]; other site 406425008344 substrate binding site [chemical binding]; other site 406425008345 catalytic residues [active] 406425008346 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425008347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425008348 Helix-turn-helix domains; Region: HTH; cl00088 406425008349 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 406425008350 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 406425008351 putative active site [active] 406425008352 catalytic site [active] 406425008353 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 406425008354 putative active site [active] 406425008355 catalytic site [active] 406425008356 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 406425008357 nudix motif; other site 406425008358 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 406425008359 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 406425008360 dimer interface [polypeptide binding]; other site 406425008361 anticodon binding site; other site 406425008362 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 406425008363 homodimer interface [polypeptide binding]; other site 406425008364 motif 1; other site 406425008365 active site 406425008366 motif 2; other site 406425008367 GAD domain; Region: GAD; pfam02938 406425008368 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 406425008369 motif 3; other site 406425008370 Protein of unknown function (DUF502); Region: DUF502; cl01107 406425008371 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 406425008372 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 406425008373 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425008374 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425008375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 406425008376 SCP-2 sterol transfer family; Region: SCP2; cl01225 406425008377 Tim44-like domain; Region: Tim44; cl09208 406425008378 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 406425008379 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425008380 S-adenosylmethionine binding site [chemical binding]; other site 406425008381 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425008382 Protein of unknown function (DUF971); Region: DUF971; cl01414 406425008383 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 406425008384 nucleotide binding site/active site [active] 406425008385 HIT family signature motif; other site 406425008386 catalytic residue [active] 406425008387 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 406425008388 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425008389 FAD binding domain; Region: FAD_binding_4; pfam01565 406425008390 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 406425008391 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 406425008392 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425008393 Cysteine-rich domain; Region: CCG; pfam02754 406425008394 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 406425008395 threonine dehydratase; Reviewed; Region: PRK09224 406425008396 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425008397 tetramer interface [polypeptide binding]; other site 406425008398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425008399 catalytic residue [active] 406425008400 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 406425008401 putative Ile/Val binding site [chemical binding]; other site 406425008402 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 406425008403 putative Ile/Val binding site [chemical binding]; other site 406425008404 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 406425008405 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 406425008406 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 406425008407 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 406425008408 homotrimer interaction site [polypeptide binding]; other site 406425008409 putative active site [active] 406425008410 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 406425008411 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 406425008412 active site 406425008413 putative substrate binding pocket [chemical binding]; other site 406425008414 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425008415 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425008416 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425008417 putative active site [active] 406425008418 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 406425008419 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 406425008420 dimer interface [polypeptide binding]; other site 406425008421 active site 406425008422 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425008423 substrate binding site [chemical binding]; other site 406425008424 catalytic residue [active] 406425008425 intracellular protease, PfpI family; Region: PfpI; TIGR01382 406425008426 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 406425008427 conserved cys residue [active] 406425008428 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425008429 Helix-turn-helix domains; Region: HTH; cl00088 406425008430 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008431 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425008432 putative substrate translocation pore; other site 406425008433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008434 EcsC protein family; Region: EcsC; pfam12787 406425008435 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425008436 CHRD domain; Region: CHRD; cl06473 406425008437 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425008438 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 406425008439 intersubunit interface [polypeptide binding]; other site 406425008440 active site 406425008441 Zn2+ binding site [ion binding]; other site 406425008442 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 406425008443 putative active site [active] 406425008444 catalytic site [active] 406425008445 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 406425008446 putative active site [active] 406425008447 catalytic site [active] 406425008448 Peptidase family M48; Region: Peptidase_M48; cl12018 406425008449 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 406425008450 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 406425008451 NAD(P) binding site [chemical binding]; other site 406425008452 homotetramer interface [polypeptide binding]; other site 406425008453 homodimer interface [polypeptide binding]; other site 406425008454 active site 406425008455 putative acyltransferase; Provisional; Region: PRK05790 406425008456 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425008457 dimer interface [polypeptide binding]; other site 406425008458 active site 406425008459 Phasin protein; Region: Phasin_2; cl11491 406425008460 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 406425008461 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425008462 P-loop; other site 406425008463 Magnesium ion binding site [ion binding]; other site 406425008464 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425008465 Magnesium ion binding site [ion binding]; other site 406425008466 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 406425008467 active site 406425008468 DNA binding site [nucleotide binding] 406425008469 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 406425008470 active site 406425008471 SUMO-1 interface [polypeptide binding]; other site 406425008472 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 406425008473 dimer interface [polypeptide binding]; other site 406425008474 ssDNA binding site [nucleotide binding]; other site 406425008475 tetramer (dimer of dimers) interface [polypeptide binding]; other site 406425008476 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425008477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425008478 putative substrate translocation pore; other site 406425008479 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 406425008480 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 406425008481 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 406425008482 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 406425008483 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 406425008484 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 406425008485 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 406425008486 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 406425008487 putative active site [active] 406425008488 putative substrate binding site [chemical binding]; other site 406425008489 putative cosubstrate binding site; other site 406425008490 catalytic site [active] 406425008491 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 406425008492 nudix motif; other site 406425008493 LysE type translocator; Region: LysE; cl00565 406425008494 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425008495 active site 406425008496 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425008497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008498 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 406425008499 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 406425008500 putative active site [active] 406425008501 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 406425008502 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 406425008503 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425008504 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 406425008505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 406425008506 OstA-like protein; Region: OstA; cl00844 406425008507 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 406425008508 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 406425008509 Walker A/P-loop; other site 406425008510 ATP binding site [chemical binding]; other site 406425008511 Q-loop/lid; other site 406425008512 ABC transporter signature motif; other site 406425008513 Walker B; other site 406425008514 D-loop; other site 406425008515 H-loop/switch region; other site 406425008516 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 406425008517 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 406425008518 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 406425008519 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 406425008520 30S subunit binding site; other site 406425008521 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 406425008522 active site 406425008523 phosphorylation site [posttranslational modification] 406425008524 HPr kinase/phosphorylase; Provisional; Region: PRK05428 406425008525 DRTGG domain; Region: DRTGG; cl12147 406425008526 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 406425008527 Hpr binding site; other site 406425008528 active site 406425008529 homohexamer subunit interaction site [polypeptide binding]; other site 406425008530 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 406425008531 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 406425008532 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 406425008533 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 406425008534 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425008535 minor groove reading motif; other site 406425008536 helix-hairpin-helix signature motif; other site 406425008537 substrate binding pocket [chemical binding]; other site 406425008538 active site 406425008539 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 406425008540 DNA binding and oxoG recognition site [nucleotide binding] 406425008541 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 406425008542 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 406425008543 DNA binding site [nucleotide binding] 406425008544 catalytic residue [active] 406425008545 H2TH interface [polypeptide binding]; other site 406425008546 putative catalytic residues [active] 406425008547 turnover-facilitating residue; other site 406425008548 intercalation triad [nucleotide binding]; other site 406425008549 8OG recognition residue [nucleotide binding]; other site 406425008550 putative reading head residues; other site 406425008551 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 406425008552 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 406425008553 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 406425008554 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008555 binding surface 406425008556 TPR motif; other site 406425008557 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008558 TPR motif; other site 406425008559 binding surface 406425008560 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425008561 binding surface 406425008562 TPR motif; other site 406425008563 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 406425008564 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 406425008565 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 406425008566 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 406425008567 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 406425008568 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425008569 active site 406425008570 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 406425008571 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 406425008572 5S rRNA interface [nucleotide binding]; other site 406425008573 CTC domain interface [polypeptide binding]; other site 406425008574 L16 interface [polypeptide binding]; other site 406425008575 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 406425008576 putative active site [active] 406425008577 catalytic residue [active] 406425008578 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 406425008579 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425008580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425008581 homodimer interface [polypeptide binding]; other site 406425008582 catalytic residue [active] 406425008583 ferredoxin; Validated; Region: PRK07118 406425008584 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 406425008585 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 406425008586 active site 406425008587 (T/H)XGH motif; other site 406425008588 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425008589 S-adenosylmethionine binding site [chemical binding]; other site 406425008590 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 406425008591 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 406425008592 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 406425008593 P loop; other site 406425008594 GTP binding site [chemical binding]; other site 406425008595 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 406425008596 maleylacetoacetate isomerase; Region: maiA; TIGR01262 406425008597 C-terminal domain interface [polypeptide binding]; other site 406425008598 GSH binding site (G-site) [chemical binding]; other site 406425008599 putative dimer interface [polypeptide binding]; other site 406425008600 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 406425008601 dimer interface [polypeptide binding]; other site 406425008602 N-terminal domain interface [polypeptide binding]; other site 406425008603 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 406425008604 glycosyl transferase family protein; Provisional; Region: PRK08136 406425008605 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 406425008606 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 406425008607 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 406425008608 active site 406425008609 catalytic residues [active] 406425008610 metal binding site [ion binding]; metal-binding site 406425008611 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425008612 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 406425008613 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 406425008614 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425008615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425008616 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425008617 DNA binding residues [nucleotide binding] 406425008618 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 406425008619 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 406425008620 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 406425008621 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 406425008622 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 406425008623 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 406425008624 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 406425008625 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 406425008626 active site 406425008627 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 406425008628 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 406425008629 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 406425008630 active site turn [active] 406425008631 phosphorylation site [posttranslational modification] 406425008632 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 406425008633 HPr interaction site; other site 406425008634 glycerol kinase (GK) interaction site [polypeptide binding]; other site 406425008635 active site 406425008636 phosphorylation site [posttranslational modification] 406425008637 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 406425008638 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 406425008639 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 406425008640 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425008641 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 406425008642 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425008643 dimer interface [polypeptide binding]; other site 406425008644 active site 406425008645 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425008646 dimer interface [polypeptide binding]; other site 406425008647 active site 406425008648 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 406425008649 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 406425008650 active site 406425008651 dimer interface [polypeptide binding]; other site 406425008652 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425008653 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425008654 DNA-binding site [nucleotide binding]; DNA binding site 406425008655 UTRA domain; Region: UTRA; cl01230 406425008656 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 406425008657 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 406425008658 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 406425008659 generic binding surface II; other site 406425008660 generic binding surface I; other site 406425008661 DNA Polymerase Y-family; Region: PolY_like; cd03468 406425008662 active site 406425008663 DNA binding site [nucleotide binding] 406425008664 Cell division inhibitor SulA; Region: SulA; cl01880 406425008665 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 406425008666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425008667 Walker A/P-loop; other site 406425008668 ATP binding site [chemical binding]; other site 406425008669 Q-loop/lid; other site 406425008670 ABC transporter signature motif; other site 406425008671 Walker B; other site 406425008672 D-loop; other site 406425008673 H-loop/switch region; other site 406425008674 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 406425008675 TM-ABC transporter signature motif; other site 406425008676 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 406425008677 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425008678 zinc binding site [ion binding]; other site 406425008679 putative ligand binding site [chemical binding]; other site 406425008680 NMT1-like family; Region: NMT1_2; cl15260 406425008681 Cache domain; Region: Cache_2; cl07034 406425008682 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425008683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425008684 dimer interface [polypeptide binding]; other site 406425008685 putative CheW interface [polypeptide binding]; other site 406425008686 YCII-related domain; Region: YCII; cl00999 406425008687 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 406425008688 Cu(I) binding site [ion binding]; other site 406425008689 UbiA prenyltransferase family; Region: UbiA; cl00337 406425008690 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 406425008691 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 406425008692 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425008693 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 406425008694 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 406425008695 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 406425008696 Subunit III/VIIa interface [polypeptide binding]; other site 406425008697 Phospholipid binding site [chemical binding]; other site 406425008698 Subunit I/III interface [polypeptide binding]; other site 406425008699 Subunit III/VIb interface [polypeptide binding]; other site 406425008700 Subunit III/VIa interface; other site 406425008701 Subunit III/Vb interface [polypeptide binding]; other site 406425008702 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 406425008703 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 406425008704 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 406425008705 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 406425008706 Subunit I/III interface [polypeptide binding]; other site 406425008707 D-pathway; other site 406425008708 Subunit I/VIIc interface [polypeptide binding]; other site 406425008709 Subunit I/IV interface [polypeptide binding]; other site 406425008710 Subunit I/II interface [polypeptide binding]; other site 406425008711 Low-spin heme (heme a) binding site [chemical binding]; other site 406425008712 Subunit I/VIIa interface [polypeptide binding]; other site 406425008713 Subunit I/VIa interface [polypeptide binding]; other site 406425008714 Dimer interface; other site 406425008715 Putative water exit pathway; other site 406425008716 Binuclear center (heme a3/CuB) [ion binding]; other site 406425008717 K-pathway; other site 406425008718 Subunit I/Vb interface [polypeptide binding]; other site 406425008719 Putative proton exit pathway; other site 406425008720 Subunit I/VIb interface; other site 406425008721 Subunit I/VIc interface [polypeptide binding]; other site 406425008722 Electron transfer pathway; other site 406425008723 Subunit I/VIIIb interface [polypeptide binding]; other site 406425008724 Subunit I/VIIb interface [polypeptide binding]; other site 406425008725 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 406425008726 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 406425008727 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425008728 Cytochrome c; Region: Cytochrom_C; cl11414 406425008729 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425008730 ligand binding site [chemical binding]; other site 406425008731 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 406425008732 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425008733 S-adenosylmethionine binding site [chemical binding]; other site 406425008734 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 406425008735 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 406425008736 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 406425008737 putative ADP-ribose binding site [chemical binding]; other site 406425008738 putative active site [active] 406425008739 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 406425008740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008741 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 406425008742 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 406425008743 SecA binding site; other site 406425008744 Preprotein binding site; other site 406425008745 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 406425008746 GSH binding site [chemical binding]; other site 406425008747 catalytic residues [active] 406425008748 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 406425008749 active site residue [active] 406425008750 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425008751 catalytic core [active] 406425008752 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425008753 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 406425008754 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 406425008755 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 406425008756 protein binding site [polypeptide binding]; other site 406425008757 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 406425008758 Catalytic dyad [active] 406425008759 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 406425008760 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 406425008761 ATP binding site [chemical binding]; other site 406425008762 substrate interface [chemical binding]; other site 406425008763 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 406425008764 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 406425008765 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 406425008766 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425008767 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 406425008768 dimerization domain swap beta strand [polypeptide binding]; other site 406425008769 regulatory protein interface [polypeptide binding]; other site 406425008770 active site 406425008771 regulatory phosphorylation site [posttranslational modification]; other site 406425008772 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 406425008773 active pocket/dimerization site; other site 406425008774 active site 406425008775 phosphorylation site [posttranslational modification] 406425008776 glutathione synthetase; Provisional; Region: PRK05246 406425008777 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 406425008778 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425008779 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 406425008780 Glutamate-cysteine ligase; Region: GshA; pfam08886 406425008781 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 406425008782 Nitrogen regulatory protein P-II; Region: P-II; cl00412 406425008783 Nitrogen regulatory protein P-II; Region: P-II; smart00938 406425008784 Membrane fusogenic activity; Region: BMFP; cl01115 406425008785 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 406425008786 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 406425008787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425008788 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 406425008789 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425008790 catalytic residues [active] 406425008791 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425008792 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425008793 active site 406425008794 phosphorylation site [posttranslational modification] 406425008795 intermolecular recognition site; other site 406425008796 dimerization interface [polypeptide binding]; other site 406425008797 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425008798 Walker A motif; other site 406425008799 ATP binding site [chemical binding]; other site 406425008800 Walker B motif; other site 406425008801 arginine finger; other site 406425008802 Helix-turn-helix domains; Region: HTH; cl00088 406425008803 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 406425008804 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425008805 dimer interface [polypeptide binding]; other site 406425008806 phosphorylation site [posttranslational modification] 406425008807 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425008808 ATP binding site [chemical binding]; other site 406425008809 G-X-G motif; other site 406425008810 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425008811 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425008812 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 406425008813 Na binding site [ion binding]; other site 406425008814 Protein of unknown function, DUF485; Region: DUF485; cl01231 406425008815 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425008816 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425008817 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425008818 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425008819 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425008820 active site 406425008821 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425008822 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425008823 active site 406425008824 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425008825 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 406425008826 substrate binding site [chemical binding]; other site 406425008827 oxyanion hole (OAH) forming residues; other site 406425008828 trimer interface [polypeptide binding]; other site 406425008829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008830 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425008831 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425008832 Helix-turn-helix domains; Region: HTH; cl00088 406425008833 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425008834 putative effector binding pocket; other site 406425008835 dimerization interface [polypeptide binding]; other site 406425008836 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 406425008837 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425008838 Hep_Hag; Region: Hep_Hag; pfam05658 406425008839 Haemagglutinin; Region: HIM; pfam05662 406425008840 YadA-like C-terminal region; Region: YadA; pfam03895 406425008841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425008842 dimer interface [polypeptide binding]; other site 406425008843 conserved gate region; other site 406425008844 putative PBP binding loops; other site 406425008845 ABC-ATPase subunit interface; other site 406425008846 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 406425008847 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425008848 Walker A/P-loop; other site 406425008849 ATP binding site [chemical binding]; other site 406425008850 Q-loop/lid; other site 406425008851 ABC transporter signature motif; other site 406425008852 Walker B; other site 406425008853 D-loop; other site 406425008854 H-loop/switch region; other site 406425008855 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 406425008856 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425008857 substrate binding pocket [chemical binding]; other site 406425008858 membrane-bound complex binding site; other site 406425008859 hinge residues; other site 406425008860 lipoyl synthase; Provisional; Region: PRK05481 406425008861 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425008862 FeS/SAM binding site; other site 406425008863 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 406425008864 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 406425008865 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425008866 Helix-turn-helix domains; Region: HTH; cl00088 406425008867 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425008868 dimerization interface [polypeptide binding]; other site 406425008869 substrate binding pocket [chemical binding]; other site 406425008870 Protein of unknown function (DUF493); Region: DUF493; cl01102 406425008871 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 406425008872 homodimer interface [polypeptide binding]; other site 406425008873 substrate-cofactor binding pocket; other site 406425008874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425008875 catalytic residue [active] 406425008876 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 406425008877 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425008878 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 406425008879 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 406425008880 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 406425008881 dimer interface [polypeptide binding]; other site 406425008882 [2Fe-2S] cluster binding site [ion binding]; other site 406425008883 VanZ like family; Region: VanZ; cl01971 406425008884 Protein of unknown function (DUF330); Region: DUF330; cl01135 406425008885 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 406425008886 mce related protein; Region: MCE; pfam02470 406425008887 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 406425008888 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 406425008889 Walker A/P-loop; other site 406425008890 ATP binding site [chemical binding]; other site 406425008891 Q-loop/lid; other site 406425008892 ABC transporter signature motif; other site 406425008893 Walker B; other site 406425008894 D-loop; other site 406425008895 H-loop/switch region; other site 406425008896 Permease; Region: Permease; cl00510 406425008897 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 406425008898 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 406425008899 active site 406425008900 metal binding site [ion binding]; metal-binding site 406425008901 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 406425008902 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425008903 Sel1 repeat; Region: Sel1; cl02723 406425008904 Sel1 repeat; Region: Sel1; cl02723 406425008905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425008906 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425008907 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425008908 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425008909 MULE transposase domain; Region: MULE; pfam10551 406425008910 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 406425008911 biotin--protein ligase; Provisional; Region: PRK06955 406425008912 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 406425008913 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 406425008914 Type III pantothenate kinase; Region: Pan_kinase; cl09130 406425008915 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425008916 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 406425008917 active site 406425008918 HIGH motif; other site 406425008919 nucleotide binding site [chemical binding]; other site 406425008920 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 406425008921 dinuclear metal binding motif [ion binding]; other site 406425008922 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 406425008923 active site 406425008924 nucleophile elbow; other site 406425008925 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425008926 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425008927 substrate binding site [chemical binding]; other site 406425008928 oxyanion hole (OAH) forming residues; other site 406425008929 trimer interface [polypeptide binding]; other site 406425008930 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425008931 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425008932 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425008933 Helix-turn-helix domains; Region: HTH; cl00088 406425008934 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 406425008935 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 406425008936 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 406425008937 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 406425008938 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 406425008939 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 406425008940 substrate binding pocket [chemical binding]; other site 406425008941 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 406425008942 B12 binding site [chemical binding]; other site 406425008943 cobalt ligand [ion binding]; other site 406425008944 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 406425008945 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 406425008946 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 406425008947 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 406425008948 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 406425008949 active site 406425008950 HIGH motif; other site 406425008951 KMSK motif region; other site 406425008952 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 406425008953 tRNA binding surface [nucleotide binding]; other site 406425008954 anticodon binding site; other site 406425008955 Sporulation related domain; Region: SPOR; cl10051 406425008956 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 406425008957 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 406425008958 catalytic residues [active] 406425008959 hinge region; other site 406425008960 alpha helical domain; other site 406425008961 short chain dehydrogenase; Provisional; Region: PRK08251 406425008962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425008963 NAD(P) binding site [chemical binding]; other site 406425008964 active site 406425008965 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 406425008966 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425008967 peptide binding site [polypeptide binding]; other site 406425008968 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 406425008969 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425008970 Walker A/P-loop; other site 406425008971 ATP binding site [chemical binding]; other site 406425008972 Q-loop/lid; other site 406425008973 ABC transporter signature motif; other site 406425008974 Walker B; other site 406425008975 D-loop; other site 406425008976 H-loop/switch region; other site 406425008977 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 406425008978 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425008979 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 406425008980 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 406425008981 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 406425008982 active site clefts [active] 406425008983 zinc binding site [ion binding]; other site 406425008984 dimer interface [polypeptide binding]; other site 406425008985 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 406425008986 NADP binding site [chemical binding]; other site 406425008987 homodimer interface [polypeptide binding]; other site 406425008988 active site 406425008989 hypothetical protein; Provisional; Region: PRK01842 406425008990 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 406425008991 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425008992 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 406425008993 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425008994 inhibitor-cofactor binding pocket; inhibition site 406425008995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425008996 catalytic residue [active] 406425008997 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 406425008998 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425008999 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425009000 catalytic residue [active] 406425009001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425009002 AAA domain; Region: AAA_26; pfam13500 406425009003 biotin synthase; Provisional; Region: PRK15108 406425009004 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425009005 FeS/SAM binding site; other site 406425009006 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 406425009007 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425009008 Helix-turn-helix domains; Region: HTH; cl00088 406425009009 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 406425009010 putative substrate binding pocket [chemical binding]; other site 406425009011 dimerization interface [polypeptide binding]; other site 406425009012 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 406425009013 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425009014 carboxyltransferase (CT) interaction site; other site 406425009015 biotinylation site [posttranslational modification]; other site 406425009016 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 406425009017 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425009018 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425009019 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 406425009020 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 406425009021 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 406425009022 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 406425009023 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425009024 CutC family; Region: CutC; cl01218 406425009025 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425009026 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 406425009027 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425009028 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 406425009029 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 406425009030 dimer interface [polypeptide binding]; other site 406425009031 PYR/PP interface [polypeptide binding]; other site 406425009032 TPP binding site [chemical binding]; other site 406425009033 substrate binding site [chemical binding]; other site 406425009034 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 406425009035 TPP-binding site; other site 406425009036 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 406425009037 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 406425009038 active site 406425009039 substrate binding site [chemical binding]; other site 406425009040 trimer interface [polypeptide binding]; other site 406425009041 CoA binding site [chemical binding]; other site 406425009042 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 406425009043 putative C-terminal domain interface [polypeptide binding]; other site 406425009044 putative GSH binding site (G-site) [chemical binding]; other site 406425009045 putative dimer interface [polypeptide binding]; other site 406425009046 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 406425009047 dimer interface [polypeptide binding]; other site 406425009048 N-terminal domain interface [polypeptide binding]; other site 406425009049 putative substrate binding pocket (H-site) [chemical binding]; other site 406425009050 Ion channel; Region: Ion_trans_2; cl11596 406425009051 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425009052 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425009053 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425009054 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 406425009055 dimer interface [polypeptide binding]; other site 406425009056 active site 406425009057 catalytic residue [active] 406425009058 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 406425009059 putative active site [active] 406425009060 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425009061 Helix-turn-helix domains; Region: HTH; cl00088 406425009062 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425009063 dimerization interface [polypeptide binding]; other site 406425009064 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425009065 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 406425009066 C-terminal domain interface [polypeptide binding]; other site 406425009067 GSH binding site (G-site) [chemical binding]; other site 406425009068 dimer interface [polypeptide binding]; other site 406425009069 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 406425009070 dimer interface [polypeptide binding]; other site 406425009071 substrate binding pocket (H-site) [chemical binding]; other site 406425009072 N-terminal domain interface [polypeptide binding]; other site 406425009073 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425009074 Helix-turn-helix domains; Region: HTH; cl00088 406425009075 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425009076 dimerization interface [polypeptide binding]; other site 406425009077 substrate binding pocket [chemical binding]; other site 406425009078 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425009079 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425009080 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425009081 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 406425009082 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 406425009083 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 406425009084 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425009085 catalytic loop [active] 406425009086 iron binding site [ion binding]; other site 406425009087 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425009088 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425009089 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 406425009090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009091 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 406425009092 active site 406425009093 catalytic residues [active] 406425009094 metal binding site [ion binding]; metal-binding site 406425009095 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 406425009096 putative deacylase active site [active] 406425009097 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 406425009098 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425009099 EamA-like transporter family; Region: EamA; cl01037 406425009100 EamA-like transporter family; Region: EamA; cl01037 406425009101 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 406425009102 Helix-turn-helix domains; Region: HTH; cl00088 406425009103 AsnC family; Region: AsnC_trans_reg; pfam01037 406425009104 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425009105 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 406425009106 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425009107 FMN binding site [chemical binding]; other site 406425009108 substrate binding site [chemical binding]; other site 406425009109 putative catalytic residue [active] 406425009110 transcriptional regulator; Provisional; Region: PRK10632 406425009111 Helix-turn-helix domains; Region: HTH; cl00088 406425009112 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425009113 putative effector binding pocket; other site 406425009114 dimerization interface [polypeptide binding]; other site 406425009115 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425009116 eyelet of channel; other site 406425009117 trimer interface [polypeptide binding]; other site 406425009118 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 406425009119 Membrane transport protein; Region: Mem_trans; cl09117 406425009120 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425009121 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 406425009122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425009123 metal binding site [ion binding]; metal-binding site 406425009124 active site 406425009125 I-site; other site 406425009126 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425009127 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425009128 DNA binding site [nucleotide binding] 406425009129 domain linker motif; other site 406425009130 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 406425009131 ligand binding site [chemical binding]; other site 406425009132 dimerization interface [polypeptide binding]; other site 406425009133 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 406425009134 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 406425009135 dimerization interface [polypeptide binding]; other site 406425009136 putative active cleft [active] 406425009137 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 406425009138 putative substrate binding site [chemical binding]; other site 406425009139 putative ATP binding site [chemical binding]; other site 406425009140 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 406425009141 Uncharacterized conserved protein [Function unknown]; Region: COG1565 406425009142 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 406425009143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009144 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 406425009145 active site 406425009146 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 406425009147 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 406425009148 Ligand Binding Site [chemical binding]; other site 406425009149 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 406425009150 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 406425009151 Substrate binding site; other site 406425009152 Mg++ binding site; other site 406425009153 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 406425009154 active site 406425009155 substrate binding site [chemical binding]; other site 406425009156 CoA binding site [chemical binding]; other site 406425009157 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425009158 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425009159 glutaminase active site [active] 406425009160 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425009161 dimer interface [polypeptide binding]; other site 406425009162 active site 406425009163 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425009164 dimer interface [polypeptide binding]; other site 406425009165 active site 406425009166 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 406425009167 Predicted transcriptional regulator [Transcription]; Region: COG2944 406425009168 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425009169 Iron permease FTR1 family; Region: FTR1; cl00475 406425009170 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425009171 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425009172 metal-binding site [ion binding] 406425009173 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 406425009174 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 406425009175 NAD(P) binding site [chemical binding]; other site 406425009176 catalytic residues [active] 406425009177 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425009178 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 406425009179 non-specific DNA binding site [nucleotide binding]; other site 406425009180 salt bridge; other site 406425009181 sequence-specific DNA binding site [nucleotide binding]; other site 406425009182 Cupin domain; Region: Cupin_2; cl09118 406425009183 Peptidase C26; Region: Peptidase_C26; pfam07722 406425009184 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 406425009185 catalytic triad [active] 406425009186 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425009187 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425009188 putative aminotransferase; Validated; Region: PRK07480 406425009189 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425009190 inhibitor-cofactor binding pocket; inhibition site 406425009191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425009192 catalytic residue [active] 406425009193 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 406425009194 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425009195 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 406425009196 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 406425009197 Walker A/P-loop; other site 406425009198 ATP binding site [chemical binding]; other site 406425009199 Q-loop/lid; other site 406425009200 ABC transporter signature motif; other site 406425009201 Walker B; other site 406425009202 D-loop; other site 406425009203 H-loop/switch region; other site 406425009204 TOBE domain; Region: TOBE_2; cl01440 406425009205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009206 dimer interface [polypeptide binding]; other site 406425009207 conserved gate region; other site 406425009208 putative PBP binding loops; other site 406425009209 ABC-ATPase subunit interface; other site 406425009210 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 406425009211 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009212 dimer interface [polypeptide binding]; other site 406425009213 conserved gate region; other site 406425009214 putative PBP binding loops; other site 406425009215 ABC-ATPase subunit interface; other site 406425009216 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 406425009217 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 406425009218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009219 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425009220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009221 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425009222 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 406425009223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 406425009224 TolB amino-terminal domain; Region: TolB_N; cl00639 406425009225 glutathione reductase; Validated; Region: PRK06116 406425009226 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425009227 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425009228 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425009229 eyelet of channel; other site 406425009230 trimer interface [polypeptide binding]; other site 406425009231 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 406425009232 Chromate transporter; Region: Chromate_transp; pfam02417 406425009233 Chromate transporter; Region: Chromate_transp; pfam02417 406425009234 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425009235 Helix-turn-helix domains; Region: HTH; cl00088 406425009236 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425009237 dimerization interface [polypeptide binding]; other site 406425009238 substrate binding pocket [chemical binding]; other site 406425009239 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 406425009240 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 406425009241 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425009242 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 406425009243 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425009244 Flagellar regulator YcgR; Region: YcgR; pfam07317 406425009245 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 406425009246 PilZ domain; Region: PilZ; cl01260 406425009247 Rod binding protein; Region: Rod-binding; cl01626 406425009248 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 406425009249 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 406425009250 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 406425009251 Flagellar L-ring protein; Region: FlgH; cl00905 406425009252 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 406425009253 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425009254 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425009255 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 406425009256 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425009257 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425009258 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 406425009259 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425009260 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 406425009261 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425009262 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 406425009263 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 406425009264 FlgD Ig-like domain; Region: FlgD_ig; cl15790 406425009265 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 406425009266 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425009267 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425009268 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 406425009269 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425009270 SAF-like; Region: SAF_2; pfam13144 406425009271 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 406425009272 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 406425009273 FlgN protein; Region: FlgN; cl09176 406425009274 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 406425009275 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 406425009276 active site 406425009277 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425009278 sequence-specific DNA binding site [nucleotide binding]; other site 406425009279 salt bridge; other site 406425009280 Cupin domain; Region: Cupin_2; cl09118 406425009281 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 406425009282 active site 406425009283 NTP binding site [chemical binding]; other site 406425009284 metal binding triad [ion binding]; metal-binding site 406425009285 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 406425009286 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425009287 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 406425009288 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425009289 putative C-terminal domain interface [polypeptide binding]; other site 406425009290 putative GSH binding site (G-site) [chemical binding]; other site 406425009291 putative dimer interface [polypeptide binding]; other site 406425009292 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 406425009293 putative N-terminal domain interface [polypeptide binding]; other site 406425009294 putative dimer interface [polypeptide binding]; other site 406425009295 putative substrate binding pocket (H-site) [chemical binding]; other site 406425009296 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 406425009297 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 406425009298 putative NAD(P) binding site [chemical binding]; other site 406425009299 active site 406425009300 lytic murein transglycosylase; Provisional; Region: PRK11619 406425009301 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425009302 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425009303 catalytic residue [active] 406425009304 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 406425009305 Helix-turn-helix domains; Region: HTH; cl00088 406425009306 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425009307 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 406425009308 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 406425009309 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 406425009310 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 406425009311 putative active site [active] 406425009312 TraB family; Region: TraB; cl12050 406425009313 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 406425009314 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425009315 Walker A/P-loop; other site 406425009316 ATP binding site [chemical binding]; other site 406425009317 Q-loop/lid; other site 406425009318 ABC transporter signature motif; other site 406425009319 Walker B; other site 406425009320 D-loop; other site 406425009321 H-loop/switch region; other site 406425009322 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425009323 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 406425009324 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425009325 Walker A/P-loop; other site 406425009326 ATP binding site [chemical binding]; other site 406425009327 Q-loop/lid; other site 406425009328 ABC transporter signature motif; other site 406425009329 Walker B; other site 406425009330 D-loop; other site 406425009331 H-loop/switch region; other site 406425009332 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425009333 dipeptide transporter; Provisional; Region: PRK10913 406425009334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009335 dimer interface [polypeptide binding]; other site 406425009336 conserved gate region; other site 406425009337 putative PBP binding loops; other site 406425009338 ABC-ATPase subunit interface; other site 406425009339 dipeptide transporter permease DppB; Provisional; Region: PRK10914 406425009340 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009341 dimer interface [polypeptide binding]; other site 406425009342 conserved gate region; other site 406425009343 putative PBP binding loops; other site 406425009344 ABC-ATPase subunit interface; other site 406425009345 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 406425009346 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425009347 peptide binding site [polypeptide binding]; other site 406425009348 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425009349 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425009350 putative substrate translocation pore; other site 406425009351 High potential iron-sulfur protein; Region: HIPIP; pfam01355 406425009352 Predicted dehydrogenase [General function prediction only]; Region: COG0579 406425009353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425009354 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 406425009355 putative FMN binding site [chemical binding]; other site 406425009356 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 406425009357 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425009358 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 406425009359 FAD binding pocket [chemical binding]; other site 406425009360 FAD binding motif [chemical binding]; other site 406425009361 phosphate binding motif [ion binding]; other site 406425009362 beta-alpha-beta structure motif; other site 406425009363 NAD binding pocket [chemical binding]; other site 406425009364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 406425009365 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009366 ATP binding site [chemical binding]; other site 406425009367 Mg2+ binding site [ion binding]; other site 406425009368 G-X-G motif; other site 406425009369 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425009370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009371 active site 406425009372 phosphorylation site [posttranslational modification] 406425009373 intermolecular recognition site; other site 406425009374 dimerization interface [polypeptide binding]; other site 406425009375 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425009376 DNA binding residues [nucleotide binding] 406425009377 dimerization interface [polypeptide binding]; other site 406425009378 amino acid transporter; Region: 2A0306; TIGR00909 406425009379 Spore germination protein; Region: Spore_permease; cl15802 406425009380 Spore germination protein; Region: Spore_permease; cl15802 406425009381 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 406425009382 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 406425009383 XdhC Rossmann domain; Region: XdhC_C; pfam13478 406425009384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 406425009385 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 406425009386 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 406425009387 Flagellar protein FliT; Region: FliT; cl05125 406425009388 Flagellar protein FliS; Region: FliS; cl00654 406425009389 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 406425009390 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 406425009391 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 406425009392 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 406425009393 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 406425009394 FliG C-terminal domain; Region: FliG_C; pfam01706 406425009395 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425009396 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 406425009397 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 406425009398 Walker A motif/ATP binding site; other site 406425009399 Walker B motif; other site 406425009400 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 406425009401 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 406425009402 choline dehydrogenase; Validated; Region: PRK02106 406425009403 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425009404 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 406425009405 NAD(P) binding site [chemical binding]; other site 406425009406 catalytic residues [active] 406425009407 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425009408 Phosphotransferase enzyme family; Region: APH; pfam01636 406425009409 EamA-like transporter family; Region: EamA; cl01037 406425009410 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425009411 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425009412 active site 406425009413 catalytic tetrad [active] 406425009414 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 406425009415 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425009416 S-adenosylmethionine synthetase; Validated; Region: PRK05250 406425009417 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 406425009418 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 406425009419 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 406425009420 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 406425009421 putative acyl-acceptor binding pocket; other site 406425009422 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425009423 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 406425009424 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425009425 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425009426 GAF domain; Region: GAF; cl15785 406425009427 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 406425009428 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425009429 active site 406425009430 DNA binding site [nucleotide binding] 406425009431 Int/Topo IB signature motif; other site 406425009432 PUA domain; Region: PUA; cl00607 406425009433 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 406425009434 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 406425009435 putative RNA binding site [nucleotide binding]; other site 406425009436 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009437 S-adenosylmethionine binding site [chemical binding]; other site 406425009438 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 406425009439 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 406425009440 P-loop, Walker A motif; other site 406425009441 Base recognition motif; other site 406425009442 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 406425009443 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 406425009444 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 406425009445 active site 406425009446 HslU subunit interaction site [polypeptide binding]; other site 406425009447 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 406425009448 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425009449 Walker A motif; other site 406425009450 ATP binding site [chemical binding]; other site 406425009451 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425009452 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425009453 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 406425009454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009455 active site 406425009456 phosphorylation site [posttranslational modification] 406425009457 intermolecular recognition site; other site 406425009458 dimerization interface [polypeptide binding]; other site 406425009459 Helix-turn-helix domains; Region: HTH; cl00088 406425009460 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425009461 dimer interface [polypeptide binding]; other site 406425009462 phosphorylation site [posttranslational modification] 406425009463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009464 ATP binding site [chemical binding]; other site 406425009465 Mg2+ binding site [ion binding]; other site 406425009466 G-X-G motif; other site 406425009467 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 406425009468 feedback inhibition sensing region; other site 406425009469 homohexameric interface [polypeptide binding]; other site 406425009470 nucleotide binding site [chemical binding]; other site 406425009471 N-acetyl-L-glutamate binding site [chemical binding]; other site 406425009472 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425009473 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 406425009474 division inhibitor protein; Provisional; Region: slmA; PRK09480 406425009475 Helix-turn-helix domains; Region: HTH; cl00088 406425009476 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425009477 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 406425009478 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009479 S-adenosylmethionine binding site [chemical binding]; other site 406425009480 muropeptide transporter; Validated; Region: ampG; PRK11010 406425009481 muropeptide transporter; Reviewed; Region: ampG; PRK11902 406425009482 Peptidase family M48; Region: Peptidase_M48; cl12018 406425009483 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425009484 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425009485 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 406425009486 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 406425009487 putative NAD(P) binding site [chemical binding]; other site 406425009488 putative substrate binding site [chemical binding]; other site 406425009489 catalytic Zn binding site [ion binding]; other site 406425009490 structural Zn binding site [ion binding]; other site 406425009491 dimer interface [polypeptide binding]; other site 406425009492 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 406425009493 putative active site [active] 406425009494 putative catalytic site [active] 406425009495 putative DNA binding site [nucleotide binding]; other site 406425009496 putative phosphate binding site [ion binding]; other site 406425009497 metal binding site A [ion binding]; metal-binding site 406425009498 putative AP binding site [nucleotide binding]; other site 406425009499 putative metal binding site B [ion binding]; other site 406425009500 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 406425009501 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 406425009502 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 406425009503 GatB domain; Region: GatB_Yqey; cl11497 406425009504 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 406425009505 Amidase; Region: Amidase; cl11426 406425009506 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 406425009507 rod shape-determining protein MreB; Provisional; Region: PRK13927 406425009508 Cell division protein FtsA; Region: FtsA; cl11496 406425009509 rod shape-determining protein MreC; Provisional; Region: PRK13922 406425009510 rod shape-determining protein MreC; Region: MreC; pfam04085 406425009511 rod shape-determining protein MreD; Region: MreD; cl01087 406425009512 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 406425009513 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 406425009514 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425009515 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 406425009516 Sel1 repeat; Region: Sel1; cl02723 406425009517 Sel1 repeat; Region: Sel1; cl02723 406425009518 Sel1 repeat; Region: Sel1; cl02723 406425009519 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 406425009520 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425009521 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 406425009522 active site 406425009523 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 406425009524 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 406425009525 FeS/SAM binding site; other site 406425009526 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 406425009527 Ligand Binding Site [chemical binding]; other site 406425009528 Response regulator receiver domain; Region: Response_reg; pfam00072 406425009529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009530 active site 406425009531 phosphorylation site [posttranslational modification] 406425009532 intermolecular recognition site; other site 406425009533 dimerization interface [polypeptide binding]; other site 406425009534 Helix-turn-helix domains; Region: HTH; cl00088 406425009535 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 406425009536 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425009537 dimerization interface [polypeptide binding]; other site 406425009538 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425009539 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425009540 dimer interface [polypeptide binding]; other site 406425009541 phosphorylation site [posttranslational modification] 406425009542 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009543 ATP binding site [chemical binding]; other site 406425009544 Mg2+ binding site [ion binding]; other site 406425009545 G-X-G motif; other site 406425009546 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 406425009547 16S rRNA methyltransferase B; Provisional; Region: PRK10901 406425009548 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 406425009549 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009550 S-adenosylmethionine binding site [chemical binding]; other site 406425009551 Peptidase family M48; Region: Peptidase_M48; cl12018 406425009552 LysE type translocator; Region: LysE; cl00565 406425009553 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 406425009554 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 406425009555 putative active site [active] 406425009556 substrate binding site [chemical binding]; other site 406425009557 putative cosubstrate binding site; other site 406425009558 catalytic site [active] 406425009559 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 406425009560 substrate binding site [chemical binding]; other site 406425009561 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 406425009562 active site 406425009563 catalytic residues [active] 406425009564 metal binding site [ion binding]; metal-binding site 406425009565 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425009566 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 406425009567 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425009568 catalytic residues [active] 406425009569 DNA topoisomerase III; Validated; Region: PRK08173 406425009570 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 406425009571 active site 406425009572 putative interdomain interaction site [polypeptide binding]; other site 406425009573 putative metal-binding site [ion binding]; other site 406425009574 putative nucleotide binding site [chemical binding]; other site 406425009575 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 406425009576 domain I; other site 406425009577 DNA binding groove [nucleotide binding] 406425009578 phosphate binding site [ion binding]; other site 406425009579 domain II; other site 406425009580 domain III; other site 406425009581 nucleotide binding site [chemical binding]; other site 406425009582 catalytic site [active] 406425009583 domain IV; other site 406425009584 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 406425009585 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 406425009586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425009587 Helix-turn-helix domains; Region: HTH; cl00088 406425009588 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425009589 putative effector binding pocket; other site 406425009590 dimerization interface [polypeptide binding]; other site 406425009591 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425009592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009593 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 406425009594 active site 406425009595 nucleophile elbow; other site 406425009596 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425009597 CoenzymeA binding site [chemical binding]; other site 406425009598 subunit interaction site [polypeptide binding]; other site 406425009599 PHB binding site; other site 406425009600 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 406425009601 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 406425009602 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 406425009603 CGNR zinc finger; Region: zf-CGNR; pfam11706 406425009604 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425009605 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425009606 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425009607 Walker A/P-loop; other site 406425009608 ATP binding site [chemical binding]; other site 406425009609 Q-loop/lid; other site 406425009610 ABC transporter signature motif; other site 406425009611 Walker B; other site 406425009612 D-loop; other site 406425009613 H-loop/switch region; other site 406425009614 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425009615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009616 dimer interface [polypeptide binding]; other site 406425009617 conserved gate region; other site 406425009618 putative PBP binding loops; other site 406425009619 ABC-ATPase subunit interface; other site 406425009620 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425009621 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425009622 substrate binding pocket [chemical binding]; other site 406425009623 membrane-bound complex binding site; other site 406425009624 hinge residues; other site 406425009625 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425009626 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 406425009627 NAD(P) binding site [chemical binding]; other site 406425009628 catalytic residues [active] 406425009629 Sulfatase; Region: Sulfatase; cl10460 406425009630 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 406425009631 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425009632 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 406425009633 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 406425009634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009635 dimer interface [polypeptide binding]; other site 406425009636 conserved gate region; other site 406425009637 putative PBP binding loops; other site 406425009638 ABC-ATPase subunit interface; other site 406425009639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425009640 dimer interface [polypeptide binding]; other site 406425009641 conserved gate region; other site 406425009642 putative PBP binding loops; other site 406425009643 ABC-ATPase subunit interface; other site 406425009644 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 406425009645 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425009646 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425009647 catalytic residue [active] 406425009648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009649 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425009650 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 406425009651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425009652 DNA-binding site [nucleotide binding]; DNA binding site 406425009653 FCD domain; Region: FCD; cl11656 406425009654 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425009655 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425009656 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425009657 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425009658 Helix-turn-helix domains; Region: HTH; cl00088 406425009659 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 406425009660 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425009661 dimerization interface [polypeptide binding]; other site 406425009662 L-lactate permease; Region: Lactate_perm; cl00701 406425009663 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425009664 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 406425009665 AlkA N-terminal domain; Region: AlkA_N; cl05528 406425009666 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 406425009667 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 406425009668 minor groove reading motif; other site 406425009669 helix-hairpin-helix signature motif; other site 406425009670 substrate binding pocket [chemical binding]; other site 406425009671 active site 406425009672 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 406425009673 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 406425009674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425009675 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 406425009676 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 406425009677 DNA binding site [nucleotide binding] 406425009678 active site 406425009679 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 406425009680 dimer interface [polypeptide binding]; other site 406425009681 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425009682 metal binding site [ion binding]; metal-binding site 406425009683 YaeQ protein; Region: YaeQ; cl01913 406425009684 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 406425009685 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425009686 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 406425009687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425009688 metal binding site [ion binding]; metal-binding site 406425009689 active site 406425009690 I-site; other site 406425009691 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 406425009692 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 406425009693 trmE is a tRNA modification GTPase; Region: trmE; cd04164 406425009694 G1 box; other site 406425009695 GTP/Mg2+ binding site [chemical binding]; other site 406425009696 Switch I region; other site 406425009697 G2 box; other site 406425009698 Switch II region; other site 406425009699 G3 box; other site 406425009700 G4 box; other site 406425009701 G5 box; other site 406425009702 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 406425009703 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 406425009704 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425009705 sequence-specific DNA binding site [nucleotide binding]; other site 406425009706 salt bridge; other site 406425009707 membrane protein insertase; Provisional; Region: PRK01318 406425009708 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 406425009709 Haemolytic domain; Region: Haemolytic; cl00506 406425009710 Ribonuclease P; Region: Ribonuclease_P; cl00457 406425009711 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 406425009712 Helix-turn-helix domains; Region: HTH; cl00088 406425009713 Phosphate-starvation-inducible E; Region: PsiE; cl01264 406425009714 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425009715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425009716 DNA-binding site [nucleotide binding]; DNA binding site 406425009717 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425009718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425009719 homodimer interface [polypeptide binding]; other site 406425009720 catalytic residue [active] 406425009721 formate dehydrogenase; Provisional; Region: PRK07574 406425009722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425009723 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 406425009724 [2Fe-2S] cluster binding site [ion binding]; other site 406425009725 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 406425009726 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425009727 MarC family integral membrane protein; Region: MarC; cl00919 406425009728 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 406425009729 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 406425009730 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425009731 NAD binding site [chemical binding]; other site 406425009732 catalytic Zn binding site [ion binding]; other site 406425009733 structural Zn binding site [ion binding]; other site 406425009734 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 406425009735 dimerization interface [polypeptide binding]; other site 406425009736 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425009737 putative active site [active] 406425009738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425009739 heme pocket [chemical binding]; other site 406425009740 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425009741 dimer interface [polypeptide binding]; other site 406425009742 phosphorylation site [posttranslational modification] 406425009743 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009744 ATP binding site [chemical binding]; other site 406425009745 Mg2+ binding site [ion binding]; other site 406425009746 G-X-G motif; other site 406425009747 Response regulator receiver domain; Region: Response_reg; pfam00072 406425009748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009749 active site 406425009750 phosphorylation site [posttranslational modification] 406425009751 intermolecular recognition site; other site 406425009752 dimerization interface [polypeptide binding]; other site 406425009753 BON domain; Region: BON; cl02771 406425009754 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425009755 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 406425009756 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425009757 Walker A/P-loop; other site 406425009758 ATP binding site [chemical binding]; other site 406425009759 Q-loop/lid; other site 406425009760 ABC transporter signature motif; other site 406425009761 Walker B; other site 406425009762 D-loop; other site 406425009763 H-loop/switch region; other site 406425009764 sensory histidine kinase CreC; Provisional; Region: PRK11100 406425009765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009766 active site 406425009767 phosphorylation site [posttranslational modification] 406425009768 intermolecular recognition site; other site 406425009769 dimerization interface [polypeptide binding]; other site 406425009770 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425009771 classical (c) SDRs; Region: SDR_c; cd05233 406425009772 NAD(P) binding site [chemical binding]; other site 406425009773 active site 406425009774 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 406425009775 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425009776 active site 406425009777 motif I; other site 406425009778 motif II; other site 406425009779 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425009780 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425009781 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425009782 putative active site [active] 406425009783 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 406425009784 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 406425009785 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 406425009786 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425009787 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 406425009788 active site 406425009789 Kinetochore Sim4 complex subunit FTA2; Region: FTA2; pfam13095 406425009790 Probable transposase; Region: OrfB_IS605; pfam01385 406425009791 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 406425009792 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425009793 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425009794 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 406425009795 putative active site [active] 406425009796 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425009797 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425009798 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425009799 Walker A motif; other site 406425009800 ATP binding site [chemical binding]; other site 406425009801 Walker B motif; other site 406425009802 arginine finger; other site 406425009803 Helix-turn-helix domains; Region: HTH; cl00088 406425009804 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425009805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009806 active site 406425009807 phosphorylation site [posttranslational modification] 406425009808 intermolecular recognition site; other site 406425009809 dimerization interface [polypeptide binding]; other site 406425009810 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425009811 Walker A motif; other site 406425009812 ATP binding site [chemical binding]; other site 406425009813 Walker B motif; other site 406425009814 arginine finger; other site 406425009815 Helix-turn-helix domains; Region: HTH; cl00088 406425009816 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425009817 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425009818 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 406425009819 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 406425009820 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425009821 putative active site [active] 406425009822 heme pocket [chemical binding]; other site 406425009823 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425009824 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425009825 putative active site [active] 406425009826 heme pocket [chemical binding]; other site 406425009827 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425009828 dimer interface [polypeptide binding]; other site 406425009829 phosphorylation site [posttranslational modification] 406425009830 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425009831 ATP binding site [chemical binding]; other site 406425009832 Mg2+ binding site [ion binding]; other site 406425009833 G-X-G motif; other site 406425009834 Response regulator receiver domain; Region: Response_reg; pfam00072 406425009835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009836 active site 406425009837 phosphorylation site [posttranslational modification] 406425009838 intermolecular recognition site; other site 406425009839 dimerization interface [polypeptide binding]; other site 406425009840 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425009841 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 406425009842 NAD binding site [chemical binding]; other site 406425009843 putative substrate binding site 2 [chemical binding]; other site 406425009844 putative substrate binding site 1 [chemical binding]; other site 406425009845 active site 406425009846 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 406425009847 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 406425009848 putative ADP-binding pocket [chemical binding]; other site 406425009849 BON domain; Region: BON; cl02771 406425009850 short chain dehydrogenase; Provisional; Region: PRK07109 406425009851 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 406425009852 putative NAD(P) binding site [chemical binding]; other site 406425009853 active site 406425009854 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 406425009855 short chain dehydrogenase; Provisional; Region: PRK06701 406425009856 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 406425009857 NAD binding site [chemical binding]; other site 406425009858 metal binding site [ion binding]; metal-binding site 406425009859 active site 406425009860 Domain of unknown function (DUF305); Region: DUF305; cl15795 406425009861 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 406425009862 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425009863 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 406425009864 Fe-S cluster binding site [ion binding]; other site 406425009865 active site 406425009866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425009867 active site 406425009868 phosphorylation site [posttranslational modification] 406425009869 intermolecular recognition site; other site 406425009870 dimerization interface [polypeptide binding]; other site 406425009871 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 406425009872 FOG: CBS domain [General function prediction only]; Region: COG0517 406425009873 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 406425009874 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 406425009875 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 406425009876 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 406425009877 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 406425009878 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 406425009879 hydroperoxidase II; Provisional; Region: katE; PRK11249 406425009880 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 406425009881 heme binding pocket [chemical binding]; other site 406425009882 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 406425009883 domain interactions; other site 406425009884 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 406425009885 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 406425009886 putative DNA binding site [nucleotide binding]; other site 406425009887 putative homodimer interface [polypeptide binding]; other site 406425009888 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 406425009889 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 406425009890 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 406425009891 active site 406425009892 DNA binding site [nucleotide binding] 406425009893 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 406425009894 DNA binding site [nucleotide binding] 406425009895 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 406425009896 nucleotide binding site [chemical binding]; other site 406425009897 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 406425009898 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 406425009899 intracellular protease, PfpI family; Region: PfpI; TIGR01382 406425009900 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 406425009901 proposed catalytic triad [active] 406425009902 conserved cys residue [active] 406425009903 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425009904 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 406425009905 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 406425009906 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 406425009907 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 406425009908 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 406425009909 active site 406425009910 catalytic site [active] 406425009911 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 406425009912 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 406425009913 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 406425009914 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 406425009915 active site 406425009916 catalytic site [active] 406425009917 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 406425009918 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 406425009919 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 406425009920 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 406425009921 active site 406425009922 catalytic site [active] 406425009923 glycogen branching enzyme; Provisional; Region: PRK05402 406425009924 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 406425009925 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 406425009926 active site 406425009927 catalytic site [active] 406425009928 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 406425009929 trehalose synthase; Region: treS_nterm; TIGR02456 406425009930 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 406425009931 active site 406425009932 catalytic site [active] 406425009933 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 406425009934 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 406425009935 active site 406425009936 catalytic site [active] 406425009937 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 406425009938 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 406425009939 active site 406425009940 homodimer interface [polypeptide binding]; other site 406425009941 catalytic site [active] 406425009942 acceptor binding site [chemical binding]; other site 406425009943 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 406425009944 putative catalytic site [active] 406425009945 putative metal binding site [ion binding]; other site 406425009946 putative phosphate binding site [ion binding]; other site 406425009947 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 406425009948 putative active site [active] 406425009949 catalytic site [active] 406425009950 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 406425009951 Phospholipase D delta; Region: PLN03008 406425009952 putative active site [active] 406425009953 catalytic site [active] 406425009954 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 406425009955 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 406425009956 MgtC family; Region: MgtC; pfam02308 406425009957 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 406425009958 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425009959 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425009960 [2Fe-2S] cluster binding site [ion binding]; other site 406425009961 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 406425009962 iron-sulfur cluster [ion binding]; other site 406425009963 [2Fe-2S] cluster binding site [ion binding]; other site 406425009964 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 406425009965 substrate binding pocket [chemical binding]; other site 406425009966 substrate-Mg2+ binding site; other site 406425009967 aspartate-rich region 1; other site 406425009968 aspartate-rich region 2; other site 406425009969 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 406425009970 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425009971 S-adenosylmethionine binding site [chemical binding]; other site 406425009972 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425009973 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425009974 motif II; other site 406425009975 putative arabinose transporter; Provisional; Region: PRK03545 406425009976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425009977 putative substrate translocation pore; other site 406425009978 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425009979 classical (c) SDRs; Region: SDR_c; cd05233 406425009980 NAD(P) binding site [chemical binding]; other site 406425009981 active site 406425009982 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425009983 Helix-turn-helix domains; Region: HTH; cl00088 406425009984 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425009985 putative effector binding pocket; other site 406425009986 dimerization interface [polypeptide binding]; other site 406425009987 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 406425009988 FecR protein; Region: FecR; pfam04773 406425009989 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425009990 Helix-turn-helix domains; Region: HTH; cl00088 406425009991 AsnC family; Region: AsnC_trans_reg; pfam01037 406425009992 Secretin and TonB N terminus short domain; Region: STN; cl06624 406425009993 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425009994 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425009995 N-terminal plug; other site 406425009996 ligand-binding site [chemical binding]; other site 406425009997 Gram-negative bacterial tonB protein; Region: TonB; cl10048 406425009998 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425009999 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 406425010000 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 406425010001 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425010002 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 406425010003 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425010004 catalytic residues [active] 406425010005 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 406425010006 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 406425010007 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 406425010008 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 406425010009 RNA polymerase sigma factor; Provisional; Region: PRK12528 406425010010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425010011 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425010012 DNA binding residues [nucleotide binding] 406425010013 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425010014 Helix-turn-helix domains; Region: HTH; cl00088 406425010015 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 406425010016 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 406425010017 catalytic Zn binding site [ion binding]; other site 406425010018 NAD binding site [chemical binding]; other site 406425010019 structural Zn binding site [ion binding]; other site 406425010020 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425010021 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 406425010022 NAD(P) binding site [chemical binding]; other site 406425010023 catalytic residues [active] 406425010024 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010025 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 406425010026 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425010027 DNA binding site [nucleotide binding] 406425010028 Predicted ATPase [General function prediction only]; Region: COG3903 406425010029 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425010030 MULE transposase domain; Region: MULE; pfam10551 406425010031 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 406425010032 motif 1; other site 406425010033 dimer interface [polypeptide binding]; other site 406425010034 active site 406425010035 motif 2; other site 406425010036 HEXXH motif domain; Region: mod_HExxH; TIGR04267 406425010037 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425010038 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425010039 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 406425010040 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 406425010041 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 406425010042 dimer interface [polypeptide binding]; other site 406425010043 active site 406425010044 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 406425010045 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 406425010046 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 406425010047 putative alpha subunit interface [polypeptide binding]; other site 406425010048 putative active site [active] 406425010049 putative substrate binding site [chemical binding]; other site 406425010050 Fe binding site [ion binding]; other site 406425010051 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 406425010052 inter-subunit interface; other site 406425010053 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 406425010054 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425010055 catalytic loop [active] 406425010056 iron binding site [ion binding]; other site 406425010057 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 406425010058 FAD binding pocket [chemical binding]; other site 406425010059 FAD binding motif [chemical binding]; other site 406425010060 phosphate binding motif [ion binding]; other site 406425010061 beta-alpha-beta structure motif; other site 406425010062 NAD binding pocket [chemical binding]; other site 406425010063 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425010064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010065 NAD(P) binding site [chemical binding]; other site 406425010066 active site 406425010067 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 406425010068 homotrimer interaction site [polypeptide binding]; other site 406425010069 putative active site [active] 406425010070 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425010071 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425010072 short chain dehydrogenase; Provisional; Region: PRK06179 406425010073 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425010074 NADP binding site [chemical binding]; other site 406425010075 active site 406425010076 steroid binding site; other site 406425010077 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425010078 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425010079 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425010080 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425010081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425010082 Helix-turn-helix domains; Region: HTH; cl00088 406425010083 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425010084 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425010085 Cytochrome c; Region: Cytochrom_C; cl11414 406425010086 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 406425010087 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 406425010088 D-pathway; other site 406425010089 Putative ubiquinol binding site [chemical binding]; other site 406425010090 Low-spin heme (heme b) binding site [chemical binding]; other site 406425010091 Putative water exit pathway; other site 406425010092 Binuclear center (heme o3/CuB) [ion binding]; other site 406425010093 K-pathway; other site 406425010094 Putative proton exit pathway; other site 406425010095 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425010096 Cytochrome c; Region: Cytochrom_C; cl11414 406425010097 thiamine pyrophosphate protein; Provisional; Region: PRK08273 406425010098 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 406425010099 PYR/PP interface [polypeptide binding]; other site 406425010100 dimer interface [polypeptide binding]; other site 406425010101 tetramer interface [polypeptide binding]; other site 406425010102 TPP binding site [chemical binding]; other site 406425010103 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425010104 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 406425010105 TPP-binding site [chemical binding]; other site 406425010106 Domain of unknown function (DUF305); Region: DUF305; cl15795 406425010107 FRG domain; Region: FRG; cl07460 406425010108 Low affinity iron permease; Region: Iron_permease; cl12096 406425010109 BON domain; Region: BON; cl02771 406425010110 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425010111 nudix motif; other site 406425010112 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425010113 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425010114 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425010115 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010116 putative substrate translocation pore; other site 406425010117 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425010118 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 406425010119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010120 active site 406425010121 phosphorylation site [posttranslational modification] 406425010122 intermolecular recognition site; other site 406425010123 dimerization interface [polypeptide binding]; other site 406425010124 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425010125 DNA binding site [nucleotide binding] 406425010126 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425010127 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 406425010128 regulatory phosphorylation site [posttranslational modification]; other site 406425010129 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 406425010130 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 406425010131 PhnA protein; Region: PhnA; pfam03831 406425010132 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425010133 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 406425010134 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 406425010135 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 406425010136 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 406425010137 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425010138 Walker A/P-loop; other site 406425010139 ATP binding site [chemical binding]; other site 406425010140 Q-loop/lid; other site 406425010141 ABC transporter signature motif; other site 406425010142 Walker B; other site 406425010143 D-loop; other site 406425010144 H-loop/switch region; other site 406425010145 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425010146 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425010147 Walker A/P-loop; other site 406425010148 ATP binding site [chemical binding]; other site 406425010149 Q-loop/lid; other site 406425010150 ABC transporter signature motif; other site 406425010151 Walker B; other site 406425010152 D-loop; other site 406425010153 H-loop/switch region; other site 406425010154 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425010155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010156 dimer interface [polypeptide binding]; other site 406425010157 conserved gate region; other site 406425010158 putative PBP binding loops; other site 406425010159 ABC-ATPase subunit interface; other site 406425010160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 406425010161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010162 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 406425010163 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425010164 putative acetyltransferase; Provisional; Region: PRK03624 406425010165 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425010166 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425010167 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 406425010168 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425010169 active site 406425010170 non-prolyl cis peptide bond; other site 406425010171 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010172 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425010173 substrate binding pocket [chemical binding]; other site 406425010174 membrane-bound complex binding site; other site 406425010175 hinge residues; other site 406425010176 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425010177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010179 dimer interface [polypeptide binding]; other site 406425010180 conserved gate region; other site 406425010181 putative PBP binding loops; other site 406425010182 ABC-ATPase subunit interface; other site 406425010183 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425010184 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425010185 active site 406425010186 non-prolyl cis peptide bond; other site 406425010187 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425010188 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425010189 Walker A/P-loop; other site 406425010190 ATP binding site [chemical binding]; other site 406425010191 Q-loop/lid; other site 406425010192 ABC transporter signature motif; other site 406425010193 Walker B; other site 406425010194 D-loop; other site 406425010195 H-loop/switch region; other site 406425010196 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425010197 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425010198 TM-ABC transporter signature motif; other site 406425010199 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 406425010200 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425010201 putative ligand binding site [chemical binding]; other site 406425010202 OsmC-like protein; Region: OsmC; cl00767 406425010203 Cupin domain; Region: Cupin_2; cl09118 406425010204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010205 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010207 oxidoreductase; Provisional; Region: PRK06196 406425010208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010209 NAD(P) binding site [chemical binding]; other site 406425010210 active site 406425010211 MgtC family; Region: MgtC; pfam02308 406425010212 FOG: CBS domain [General function prediction only]; Region: COG0517 406425010213 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 406425010214 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 406425010215 oxidoreductase; Provisional; Region: PRK06128 406425010216 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 406425010217 NAD binding site [chemical binding]; other site 406425010218 metal binding site [ion binding]; metal-binding site 406425010219 active site 406425010220 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425010221 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425010222 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425010223 NMT1-like family; Region: NMT1_2; cl15260 406425010224 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425010225 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425010226 Walker A/P-loop; other site 406425010227 ATP binding site [chemical binding]; other site 406425010228 Q-loop/lid; other site 406425010229 ABC transporter signature motif; other site 406425010230 Walker B; other site 406425010231 D-loop; other site 406425010232 H-loop/switch region; other site 406425010233 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425010234 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010235 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 406425010236 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425010237 Flavin binding site [chemical binding]; other site 406425010238 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425010239 active site 406425010240 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 406425010241 dimer interface [polypeptide binding]; other site 406425010242 non-prolyl cis peptide bond; other site 406425010243 insertion regions; other site 406425010244 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425010245 Moco binding site; other site 406425010246 metal coordination site [ion binding]; other site 406425010247 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425010248 trimer interface [polypeptide binding]; other site 406425010249 eyelet of channel; other site 406425010250 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 406425010251 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425010252 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010253 substrate binding pocket [chemical binding]; other site 406425010254 membrane-bound complex binding site; other site 406425010255 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 406425010256 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 406425010257 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 406425010258 active site 406425010259 Zn binding site [ion binding]; other site 406425010260 Helix-turn-helix domains; Region: HTH; cl00088 406425010261 Winged helix-turn helix; Region: HTH_29; pfam13551 406425010262 Helix-turn-helix domains; Region: HTH; cl00088 406425010263 Integrase core domain; Region: rve; cl01316 406425010264 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425010265 FCD domain; Region: FCD; cl11656 406425010266 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 406425010267 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 406425010268 putative metal binding site [ion binding]; other site 406425010269 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425010270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425010271 Walker A/P-loop; other site 406425010272 ATP binding site [chemical binding]; other site 406425010273 Q-loop/lid; other site 406425010274 ABC transporter signature motif; other site 406425010275 Walker B; other site 406425010276 D-loop; other site 406425010277 H-loop/switch region; other site 406425010278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010279 dimer interface [polypeptide binding]; other site 406425010280 conserved gate region; other site 406425010281 putative PBP binding loops; other site 406425010282 ABC-ATPase subunit interface; other site 406425010283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010284 dimer interface [polypeptide binding]; other site 406425010285 conserved gate region; other site 406425010286 putative PBP binding loops; other site 406425010287 ABC-ATPase subunit interface; other site 406425010288 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425010289 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010290 substrate binding pocket [chemical binding]; other site 406425010291 membrane-bound complex binding site; other site 406425010292 hinge residues; other site 406425010293 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425010294 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 406425010295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010296 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425010297 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425010298 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425010299 inhibitor site; inhibition site 406425010300 active site 406425010301 dimer interface [polypeptide binding]; other site 406425010302 catalytic residue [active] 406425010303 phenylhydantoinase; Validated; Region: PRK08323 406425010304 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 406425010305 tetramer interface [polypeptide binding]; other site 406425010306 active site 406425010307 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 406425010308 transketolase; Reviewed; Region: PRK05899 406425010309 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425010310 TPP-binding site [chemical binding]; other site 406425010311 dimer interface [polypeptide binding]; other site 406425010312 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425010313 PYR/PP interface [polypeptide binding]; other site 406425010314 dimer interface [polypeptide binding]; other site 406425010315 TPP binding site [chemical binding]; other site 406425010316 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425010317 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425010318 trimer interface [polypeptide binding]; other site 406425010319 eyelet of channel; other site 406425010320 benzoate transport; Region: 2A0115; TIGR00895 406425010321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010322 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010323 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 406425010324 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 406425010325 substrate binding site [chemical binding]; other site 406425010326 Protein of unknown function (DUF521); Region: DUF521; pfam04412 406425010327 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 406425010328 substrate binding site [chemical binding]; other site 406425010329 ligand binding site [chemical binding]; other site 406425010330 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425010331 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425010332 benzoate transport; Region: 2A0115; TIGR00895 406425010333 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010334 putative substrate translocation pore; other site 406425010335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010336 Dehydratase family; Region: ILVD_EDD; cl00340 406425010337 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 406425010338 Helix-turn-helix domains; Region: HTH; cl00088 406425010339 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425010340 substrate binding pocket [chemical binding]; other site 406425010341 dimerization interface [polypeptide binding]; other site 406425010342 Helix-turn-helix domains; Region: HTH; cl00088 406425010343 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 406425010344 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 406425010345 NADP binding site [chemical binding]; other site 406425010346 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425010347 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425010348 Domain of unknown function (DUF718); Region: DUF718; cl01281 406425010349 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425010350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010351 NAD(P) binding site [chemical binding]; other site 406425010352 active site 406425010353 L-rhamnonate dehydratase; Provisional; Region: PRK15440 406425010354 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 406425010355 putative active site pocket [active] 406425010356 putative metal binding site [ion binding]; other site 406425010357 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425010358 inhibitor site; inhibition site 406425010359 active site 406425010360 dimer interface [polypeptide binding]; other site 406425010361 catalytic residue [active] 406425010362 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 406425010363 Ligand binding site; other site 406425010364 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 406425010365 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425010366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425010367 DNA-binding site [nucleotide binding]; DNA binding site 406425010368 FCD domain; Region: FCD; cl11656 406425010369 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425010370 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 406425010371 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 406425010372 homotrimer interaction site [polypeptide binding]; other site 406425010373 putative active site [active] 406425010374 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425010375 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425010376 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425010377 TM-ABC transporter signature motif; other site 406425010378 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425010379 TM-ABC transporter signature motif; other site 406425010380 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425010381 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425010382 Walker A/P-loop; other site 406425010383 ATP binding site [chemical binding]; other site 406425010384 Q-loop/lid; other site 406425010385 ABC transporter signature motif; other site 406425010386 Walker B; other site 406425010387 D-loop; other site 406425010388 H-loop/switch region; other site 406425010389 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425010390 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425010391 Walker A/P-loop; other site 406425010392 ATP binding site [chemical binding]; other site 406425010393 Q-loop/lid; other site 406425010394 ABC transporter signature motif; other site 406425010395 Walker B; other site 406425010396 D-loop; other site 406425010397 H-loop/switch region; other site 406425010398 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010399 putative substrate translocation pore; other site 406425010400 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 406425010401 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 406425010402 substrate binding site; other site 406425010403 tetramer interface; other site 406425010404 Cupin domain; Region: Cupin_2; cl09118 406425010405 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 406425010406 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 406425010407 NADP binding site [chemical binding]; other site 406425010408 active site 406425010409 putative substrate binding site [chemical binding]; other site 406425010410 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 406425010411 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 406425010412 NAD binding site [chemical binding]; other site 406425010413 substrate binding site [chemical binding]; other site 406425010414 homodimer interface [polypeptide binding]; other site 406425010415 active site 406425010416 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 406425010417 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425010418 putative dimer interface [polypeptide binding]; other site 406425010419 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 406425010420 putative dimer interface [polypeptide binding]; other site 406425010421 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 406425010422 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425010423 PYR/PP interface [polypeptide binding]; other site 406425010424 dimer interface [polypeptide binding]; other site 406425010425 TPP binding site [chemical binding]; other site 406425010426 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425010427 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 406425010428 TPP-binding site [chemical binding]; other site 406425010429 dimer interface [polypeptide binding]; other site 406425010430 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010431 D-galactonate transporter; Region: 2A0114; TIGR00893 406425010432 putative substrate translocation pore; other site 406425010433 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425010434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010435 NAD(P) binding site [chemical binding]; other site 406425010436 active site 406425010437 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425010438 Helix-turn-helix domains; Region: HTH; cl00088 406425010439 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425010440 dimerization interface [polypeptide binding]; other site 406425010441 substrate binding pocket [chemical binding]; other site 406425010442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010443 Helix-turn-helix domains; Region: HTH; cl00088 406425010444 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425010445 putative dimerization interface [polypeptide binding]; other site 406425010446 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425010447 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425010448 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 406425010449 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425010450 citrate-proton symporter; Provisional; Region: PRK15075 406425010451 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010452 putative substrate translocation pore; other site 406425010453 Cache domain; Region: Cache_1; pfam02743 406425010454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425010455 metal binding site [ion binding]; metal-binding site 406425010456 active site 406425010457 I-site; other site 406425010458 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425010459 Helix-turn-helix domains; Region: HTH; cl00088 406425010460 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425010461 putative effector binding pocket; other site 406425010462 dimerization interface [polypeptide binding]; other site 406425010463 NmrA-like family; Region: NmrA; pfam05368 406425010464 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 406425010465 NADP binding site [chemical binding]; other site 406425010466 active site 406425010467 regulatory binding site [polypeptide binding]; other site 406425010468 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425010469 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425010470 metal binding site [ion binding]; metal-binding site 406425010471 putative dimer interface [polypeptide binding]; other site 406425010472 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 406425010473 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425010474 NAD binding site [chemical binding]; other site 406425010475 catalytic residues [active] 406425010476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010477 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425010478 Cupin domain; Region: Cupin_2; cl09118 406425010479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010483 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425010484 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 406425010485 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425010486 Walker A/P-loop; other site 406425010487 ATP binding site [chemical binding]; other site 406425010488 Q-loop/lid; other site 406425010489 ABC transporter signature motif; other site 406425010490 Walker B; other site 406425010491 D-loop; other site 406425010492 H-loop/switch region; other site 406425010493 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425010494 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425010495 Walker A/P-loop; other site 406425010496 ATP binding site [chemical binding]; other site 406425010497 Q-loop/lid; other site 406425010498 ABC transporter signature motif; other site 406425010499 Walker B; other site 406425010500 D-loop; other site 406425010501 H-loop/switch region; other site 406425010502 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425010503 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 406425010504 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010505 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 406425010506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010507 dimer interface [polypeptide binding]; other site 406425010508 conserved gate region; other site 406425010509 putative PBP binding loops; other site 406425010510 ABC-ATPase subunit interface; other site 406425010511 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 406425010512 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425010513 Cache domain; Region: Cache_2; cl07034 406425010514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 406425010515 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425010516 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425010517 dimer interface [polypeptide binding]; other site 406425010518 putative CheW interface [polypeptide binding]; other site 406425010519 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 406425010520 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425010521 Predicted acetyltransferase [General function prediction only]; Region: COG3153 406425010522 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425010523 Coenzyme A binding pocket [chemical binding]; other site 406425010524 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425010525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010526 hypothetical protein; Provisional; Region: PRK05965 406425010527 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425010528 inhibitor-cofactor binding pocket; inhibition site 406425010529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425010530 catalytic residue [active] 406425010531 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425010532 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425010533 putative DNA binding site [nucleotide binding]; other site 406425010534 putative Zn2+ binding site [ion binding]; other site 406425010535 AsnC family; Region: AsnC_trans_reg; pfam01037 406425010536 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425010537 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425010538 tetramerization interface [polypeptide binding]; other site 406425010539 NAD(P) binding site [chemical binding]; other site 406425010540 catalytic residues [active] 406425010541 Helix-turn-helix domains; Region: HTH; cl00088 406425010542 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010543 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 406425010544 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 406425010545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425010546 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425010547 DNA binding residues [nucleotide binding] 406425010548 dimerization interface [polypeptide binding]; other site 406425010549 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425010550 Helix-turn-helix domains; Region: HTH; cl00088 406425010551 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 406425010552 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 406425010553 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425010554 S-adenosylmethionine binding site [chemical binding]; other site 406425010555 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 406425010556 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425010557 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010558 putative substrate translocation pore; other site 406425010559 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425010560 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425010561 DNA binding site [nucleotide binding] 406425010562 domain linker motif; other site 406425010563 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 406425010564 putative dimerization interface [polypeptide binding]; other site 406425010565 putative ligand binding site [chemical binding]; other site 406425010566 Dehydratase family; Region: ILVD_EDD; cl00340 406425010567 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 406425010568 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 406425010569 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425010570 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010571 Helix-turn-helix domains; Region: HTH; cl00088 406425010572 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 406425010573 putative dimerization interface [polypeptide binding]; other site 406425010574 tricarballylate dehydrogenase; Validated; Region: PRK08274 406425010575 tricarballylate utilization protein B; Provisional; Region: PRK15033 406425010576 citrate-proton symporter; Provisional; Region: PRK15075 406425010577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010578 putative substrate translocation pore; other site 406425010579 Cache domain; Region: Cache_1; pfam02743 406425010580 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425010581 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425010582 dimer interface [polypeptide binding]; other site 406425010583 putative CheW interface [polypeptide binding]; other site 406425010584 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425010585 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425010586 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425010587 dimer interface [polypeptide binding]; other site 406425010588 putative CheW interface [polypeptide binding]; other site 406425010589 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 406425010590 active site 406425010591 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 406425010592 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 406425010593 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 406425010594 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 406425010595 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 406425010596 altronate oxidoreductase; Provisional; Region: PRK03643 406425010597 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 406425010598 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425010599 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 406425010600 putative NAD(P) binding site [chemical binding]; other site 406425010601 catalytic Zn binding site [ion binding]; other site 406425010602 structural Zn binding site [ion binding]; other site 406425010603 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425010604 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425010605 active site 406425010606 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425010607 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425010608 active site 406425010609 catalytic tetrad [active] 406425010610 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 406425010611 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425010612 putative ligand binding site [chemical binding]; other site 406425010613 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425010614 TM-ABC transporter signature motif; other site 406425010615 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425010616 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425010617 Walker A/P-loop; other site 406425010618 ATP binding site [chemical binding]; other site 406425010619 Q-loop/lid; other site 406425010620 ABC transporter signature motif; other site 406425010621 Walker B; other site 406425010622 D-loop; other site 406425010623 H-loop/switch region; other site 406425010624 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425010625 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425010626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425010627 DNA-binding site [nucleotide binding]; DNA binding site 406425010628 FCD domain; Region: FCD; cl11656 406425010629 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425010630 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425010631 N-terminal plug; other site 406425010632 ligand-binding site [chemical binding]; other site 406425010633 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 406425010634 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 406425010635 transmembrane helices; other site 406425010636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010637 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425010638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010639 active site 406425010640 phosphorylation site [posttranslational modification] 406425010641 intermolecular recognition site; other site 406425010642 dimerization interface [polypeptide binding]; other site 406425010643 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425010644 Walker A motif; other site 406425010645 ATP binding site [chemical binding]; other site 406425010646 Walker B motif; other site 406425010647 arginine finger; other site 406425010648 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 406425010649 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425010650 dimer interface [polypeptide binding]; other site 406425010651 phosphorylation site [posttranslational modification] 406425010652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425010653 ATP binding site [chemical binding]; other site 406425010654 G-X-G motif; other site 406425010655 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425010656 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425010657 TM-ABC transporter signature motif; other site 406425010658 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 406425010659 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425010660 Walker A/P-loop; other site 406425010661 ATP binding site [chemical binding]; other site 406425010662 Q-loop/lid; other site 406425010663 ABC transporter signature motif; other site 406425010664 Walker B; other site 406425010665 D-loop; other site 406425010666 H-loop/switch region; other site 406425010667 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425010668 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 406425010669 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 406425010670 putative ligand binding site [chemical binding]; other site 406425010671 xylulokinase; Provisional; Region: PRK15027 406425010672 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 406425010673 N- and C-terminal domain interface [polypeptide binding]; other site 406425010674 active site 406425010675 catalytic site [active] 406425010676 metal binding site [ion binding]; metal-binding site 406425010677 xylulose binding site [chemical binding]; other site 406425010678 putative ATP binding site [chemical binding]; other site 406425010679 homodimer interface [polypeptide binding]; other site 406425010680 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 406425010681 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 406425010682 putative dimerization interface [polypeptide binding]; other site 406425010683 putative ligand binding site [chemical binding]; other site 406425010684 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010686 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 406425010687 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 406425010688 active site 406425010689 catalytic residues [active] 406425010690 Cupin domain; Region: Cupin_2; cl09118 406425010691 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010692 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010693 Uncharacterized conserved protein [Function unknown]; Region: COG2128 406425010694 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425010695 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425010696 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425010697 active site 406425010698 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425010699 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425010700 Walker A/P-loop; other site 406425010701 ATP binding site [chemical binding]; other site 406425010702 Q-loop/lid; other site 406425010703 ABC transporter signature motif; other site 406425010704 Walker B; other site 406425010705 D-loop; other site 406425010706 H-loop/switch region; other site 406425010707 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425010708 NMT1-like family; Region: NMT1_2; cl15260 406425010709 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010710 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425010711 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 406425010712 Flavin binding site [chemical binding]; other site 406425010713 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425010714 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425010715 active site 406425010716 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425010717 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425010718 active site 406425010719 non-prolyl cis peptide bond; other site 406425010720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010721 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 406425010722 putative substrate translocation pore; other site 406425010723 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425010724 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010725 substrate binding pocket [chemical binding]; other site 406425010726 NMT1-like family; Region: NMT1_2; cl15260 406425010727 membrane-bound complex binding site; other site 406425010728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425010729 dimer interface [polypeptide binding]; other site 406425010730 conserved gate region; other site 406425010731 putative PBP binding loops; other site 406425010732 ABC-ATPase subunit interface; other site 406425010733 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425010734 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425010735 Walker A/P-loop; other site 406425010736 ATP binding site [chemical binding]; other site 406425010737 Q-loop/lid; other site 406425010738 ABC transporter signature motif; other site 406425010739 Walker B; other site 406425010740 D-loop; other site 406425010741 H-loop/switch region; other site 406425010742 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425010743 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425010744 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 406425010745 transcriptional regulator MerD; Provisional; Region: PRK13749 406425010746 DNA binding residues [nucleotide binding] 406425010747 putative dimer interface [polypeptide binding]; other site 406425010748 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 406425010749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425010750 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425010751 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 406425010752 active site 406425010753 metal binding site [ion binding]; metal-binding site 406425010754 Haemagglutinin; Region: HIM; pfam05662 406425010755 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 406425010756 Haemagglutinin; Region: HIM; pfam05662 406425010757 YadA-like C-terminal region; Region: YadA; pfam03895 406425010758 Response regulator receiver domain; Region: Response_reg; pfam00072 406425010759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425010760 active site 406425010761 phosphorylation site [posttranslational modification] 406425010762 intermolecular recognition site; other site 406425010763 dimerization interface [polypeptide binding]; other site 406425010764 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010765 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010766 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 406425010767 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425010768 N-terminal plug; other site 406425010769 ligand-binding site [chemical binding]; other site 406425010770 Protein of unknown function DUF72; Region: DUF72; cl00777 406425010771 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425010772 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425010773 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425010774 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425010775 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425010776 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425010777 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425010778 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425010779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425010780 Dienelactone hydrolase family; Region: DLH; pfam01738 406425010781 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425010782 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425010783 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 406425010784 classical (c) SDRs; Region: SDR_c; cd05233 406425010785 NAD(P) binding site [chemical binding]; other site 406425010786 active site 406425010787 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 406425010788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010789 Flavin Reductases; Region: FlaRed; cl00801 406425010790 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 406425010791 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425010792 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 406425010793 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425010794 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 406425010795 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 406425010796 ATP binding site [chemical binding]; other site 406425010797 Walker A motif; other site 406425010798 hexamer interface [polypeptide binding]; other site 406425010799 Walker B motif; other site 406425010800 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 406425010801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 406425010802 active site 406425010803 phosphorylation site [posttranslational modification] 406425010804 intermolecular recognition site; other site 406425010805 dimerization interface [polypeptide binding]; other site 406425010806 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 406425010807 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 406425010808 TadE-like protein; Region: TadE; cl10688 406425010809 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 406425010810 TadE-like protein; Region: TadE; cl10688 406425010811 TadE-like protein; Region: TadE; cl10688 406425010812 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 406425010813 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425010814 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 406425010815 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 406425010816 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425010817 active site 406425010818 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 406425010819 Flp/Fap pilin component; Region: Flp_Fap; cl01585 406425010820 Flp/Fap pilin component; Region: Flp_Fap; cl01585 406425010821 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 406425010822 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 406425010823 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 406425010824 Ligand binding site; other site 406425010825 Putative Catalytic site; other site 406425010826 DXD motif; other site 406425010827 GtrA-like protein; Region: GtrA; cl00971 406425010828 Inclusion body protein; Region: PixA; pfam12306 406425010829 Inclusion body protein; Region: PixA; pfam12306 406425010830 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010831 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425010832 substrate binding pocket [chemical binding]; other site 406425010833 membrane-bound complex binding site; other site 406425010834 hinge residues; other site 406425010835 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425010836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010837 putative substrate translocation pore; other site 406425010838 hypothetical protein; Provisional; Region: PRK07206 406425010839 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425010840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010841 Helix-turn-helix domains; Region: HTH; cl00088 406425010842 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425010843 dimerization interface [polypeptide binding]; other site 406425010844 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425010845 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 406425010846 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010847 putative substrate translocation pore; other site 406425010848 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425010849 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425010850 Helix-turn-helix domains; Region: HTH; cl00088 406425010851 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425010852 dimerization interface [polypeptide binding]; other site 406425010853 substrate binding pocket [chemical binding]; other site 406425010854 NIPSNAP; Region: NIPSNAP; pfam07978 406425010855 NIPSNAP; Region: NIPSNAP; pfam07978 406425010856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010857 Helix-turn-helix domains; Region: HTH; cl00088 406425010858 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425010859 dimerization interface [polypeptide binding]; other site 406425010860 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 406425010861 DNA-binding site [nucleotide binding]; DNA binding site 406425010862 RNA-binding motif; other site 406425010863 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425010864 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425010865 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425010866 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425010867 Helix-turn-helix domains; Region: HTH; cl00088 406425010868 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010869 Helix-turn-helix domains; Region: HTH; cl00088 406425010870 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425010871 substrate binding pocket [chemical binding]; other site 406425010872 dimerization interface [polypeptide binding]; other site 406425010873 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 406425010874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010875 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425010876 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425010877 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425010878 active site 406425010879 metal binding site [ion binding]; metal-binding site 406425010880 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 406425010881 active site 406425010882 catalytic site [active] 406425010883 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425010884 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425010885 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 406425010886 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 406425010887 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 406425010888 shikimate binding site; other site 406425010889 NAD(P) binding site [chemical binding]; other site 406425010890 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425010891 putative substrate translocation pore; other site 406425010892 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425010893 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425010894 Coenzyme A binding pocket [chemical binding]; other site 406425010895 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 406425010896 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 406425010897 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425010898 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425010899 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425010900 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425010901 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425010902 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425010903 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 406425010904 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 406425010905 dimer interface [polypeptide binding]; other site 406425010906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425010907 catalytic residue [active] 406425010908 MAPEG family; Region: MAPEG; cl09190 406425010909 NmrA (a transcriptional regulator), HSCARG (an NADPH sensor), and triphenylmethane reductase (TMR) like proteins, atypical (a) SDRs; Region: NmrA_TMR_like_SDR_a; cd08947 406425010910 NmrA-like family; Region: NmrA; pfam05368 406425010911 NADP binding site [chemical binding]; other site 406425010912 transcriptional regulator; Provisional; Region: PRK10632 406425010913 Helix-turn-helix domains; Region: HTH; cl00088 406425010914 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425010915 putative effector binding pocket; other site 406425010916 dimerization interface [polypeptide binding]; other site 406425010917 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 406425010918 conserved cys residue [active] 406425010919 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425010920 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 406425010921 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425010922 NADP binding site [chemical binding]; other site 406425010923 active site 406425010924 steroid binding site; other site 406425010925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425010926 DNA-binding site [nucleotide binding]; DNA binding site 406425010927 FCD domain; Region: FCD; cl11656 406425010928 aminotransferase; Validated; Region: PRK07046 406425010929 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425010930 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425010931 catalytic residue [active] 406425010932 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425010933 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425010934 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425010935 classical (c) SDRs; Region: SDR_c; cd05233 406425010936 NAD(P) binding site [chemical binding]; other site 406425010937 active site 406425010938 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425010939 Helix-turn-helix domains; Region: HTH; cl00088 406425010940 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425010941 putative effector binding pocket; other site 406425010942 dimerization interface [polypeptide binding]; other site 406425010943 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425010944 Helix-turn-helix domains; Region: HTH; cl00088 406425010945 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425010946 dimerization interface [polypeptide binding]; other site 406425010947 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 406425010948 classical (c) SDRs; Region: SDR_c; cd05233 406425010949 NAD(P) binding site [chemical binding]; other site 406425010950 active site 406425010951 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425010952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010953 NAD(P) binding site [chemical binding]; other site 406425010954 active site 406425010955 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 406425010956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425010957 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425010958 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425010959 substrate binding pocket [chemical binding]; other site 406425010960 membrane-bound complex binding site; other site 406425010961 hinge residues; other site 406425010962 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425010963 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425010964 Walker A/P-loop; other site 406425010965 ATP binding site [chemical binding]; other site 406425010966 Q-loop/lid; other site 406425010967 ABC transporter signature motif; other site 406425010968 Walker B; other site 406425010969 D-loop; other site 406425010970 H-loop/switch region; other site 406425010971 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425010972 allophanate hydrolase; Provisional; Region: PRK08186 406425010973 Amidase; Region: Amidase; cl11426 406425010974 urea carboxylase; Region: urea_carbox; TIGR02712 406425010975 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425010976 ATP-grasp domain; Region: ATP-grasp_4; cl03087 406425010977 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 406425010978 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 406425010979 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 406425010980 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425010981 carboxyltransferase (CT) interaction site; other site 406425010982 biotinylation site [posttranslational modification]; other site 406425010983 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 406425010984 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 406425010985 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 406425010986 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 406425010987 NMT1-like family; Region: NMT1_2; cl15260 406425010988 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 406425010989 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425010990 active site 406425010991 metal binding site [ion binding]; metal-binding site 406425010992 hexamer interface [polypeptide binding]; other site 406425010993 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 406425010994 motif 1; other site 406425010995 dimer interface [polypeptide binding]; other site 406425010996 active site 406425010997 motif 2; other site 406425010998 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425010999 Helix-turn-helix domains; Region: HTH; cl00088 406425011000 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011001 dimerization interface [polypeptide binding]; other site 406425011002 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011003 dimer interface [polypeptide binding]; other site 406425011004 phosphorylation site [posttranslational modification] 406425011005 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011006 ATP binding site [chemical binding]; other site 406425011007 Mg2+ binding site [ion binding]; other site 406425011008 G-X-G motif; other site 406425011009 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425011010 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 406425011011 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 406425011012 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 406425011013 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011014 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 406425011015 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011016 ATP binding site [chemical binding]; other site 406425011017 Mg2+ binding site [ion binding]; other site 406425011018 G-X-G motif; other site 406425011019 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 406425011020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011021 active site 406425011022 phosphorylation site [posttranslational modification] 406425011023 intermolecular recognition site; other site 406425011024 dimerization interface [polypeptide binding]; other site 406425011025 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 406425011026 Zn2+ binding site [ion binding]; other site 406425011027 Mg2+ binding site [ion binding]; other site 406425011028 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425011029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425011030 Coenzyme A binding pocket [chemical binding]; other site 406425011031 RNase II stability modulator; Provisional; Region: PRK10060 406425011032 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425011033 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425011034 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425011035 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011036 DNA-binding site [nucleotide binding]; DNA binding site 406425011037 FCD domain; Region: FCD; cl11656 406425011038 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425011039 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425011040 trimer interface [polypeptide binding]; other site 406425011041 eyelet of channel; other site 406425011042 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011043 Helix-turn-helix domains; Region: HTH; cl00088 406425011044 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425011045 dimerization interface [polypeptide binding]; other site 406425011046 substrate binding pocket [chemical binding]; other site 406425011047 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011048 putative substrate translocation pore; other site 406425011049 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 406425011050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011051 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425011052 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 406425011053 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425011054 conserved cys residue [active] 406425011055 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 406425011056 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 406425011057 Chromate transporter; Region: Chromate_transp; pfam02417 406425011058 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 406425011059 Chromate transporter; Region: Chromate_transp; pfam02417 406425011060 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 406425011061 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 406425011062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011063 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425011064 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011065 dimer interface [polypeptide binding]; other site 406425011066 phosphorylation site [posttranslational modification] 406425011067 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011068 ATP binding site [chemical binding]; other site 406425011069 Mg2+ binding site [ion binding]; other site 406425011070 G-X-G motif; other site 406425011071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011072 active site 406425011073 phosphorylation site [posttranslational modification] 406425011074 intermolecular recognition site; other site 406425011075 dimerization interface [polypeptide binding]; other site 406425011076 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425011077 DNA binding site [nucleotide binding] 406425011078 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 406425011079 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011080 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011081 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425011082 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 406425011083 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425011084 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011085 substrate binding pocket [chemical binding]; other site 406425011086 membrane-bound complex binding site; other site 406425011087 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 406425011088 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425011089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425011090 catalytic residue [active] 406425011091 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425011092 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425011093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011094 Helix-turn-helix domains; Region: HTH; cl00088 406425011095 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425011096 dimerization interface [polypeptide binding]; other site 406425011097 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425011098 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011099 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425011100 substrate binding pocket [chemical binding]; other site 406425011101 membrane-bound complex binding site; other site 406425011102 hinge residues; other site 406425011103 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 406425011104 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 406425011105 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 406425011106 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425011107 Walker A/P-loop; other site 406425011108 ATP binding site [chemical binding]; other site 406425011109 Q-loop/lid; other site 406425011110 ABC transporter signature motif; other site 406425011111 Walker B; other site 406425011112 D-loop; other site 406425011113 H-loop/switch region; other site 406425011114 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 406425011115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425011116 Walker A/P-loop; other site 406425011117 ATP binding site [chemical binding]; other site 406425011118 Q-loop/lid; other site 406425011119 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 406425011120 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 406425011121 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 406425011122 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425011123 ligand binding site [chemical binding]; other site 406425011124 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425011125 YadA-like C-terminal region; Region: YadA; pfam03895 406425011126 Response regulator receiver domain; Region: Response_reg; pfam00072 406425011127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011128 active site 406425011129 phosphorylation site [posttranslational modification] 406425011130 intermolecular recognition site; other site 406425011131 dimerization interface [polypeptide binding]; other site 406425011132 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011134 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 406425011135 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 406425011136 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011137 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011138 dimer interface [polypeptide binding]; other site 406425011139 phosphorylation site [posttranslational modification] 406425011140 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011141 ATP binding site [chemical binding]; other site 406425011142 Mg2+ binding site [ion binding]; other site 406425011143 G-X-G motif; other site 406425011144 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425011145 TM-ABC transporter signature motif; other site 406425011146 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425011147 TM-ABC transporter signature motif; other site 406425011148 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425011149 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425011150 Walker A/P-loop; other site 406425011151 ATP binding site [chemical binding]; other site 406425011152 Q-loop/lid; other site 406425011153 ABC transporter signature motif; other site 406425011154 Walker B; other site 406425011155 D-loop; other site 406425011156 H-loop/switch region; other site 406425011157 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425011158 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 406425011159 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425011160 putative ligand binding site [chemical binding]; other site 406425011161 Pirin-related protein [General function prediction only]; Region: COG1741 406425011162 Cupin domain; Region: Cupin_2; cl09118 406425011163 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425011164 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425011165 Helix-turn-helix domains; Region: HTH; cl00088 406425011166 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425011167 putative effector binding pocket; other site 406425011168 dimerization interface [polypeptide binding]; other site 406425011169 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 406425011170 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 406425011171 active site 406425011172 DNA binding site [nucleotide binding] 406425011173 Int/Topo IB signature motif; other site 406425011174 catalytic residues [active] 406425011175 proline/glycine betaine transporter; Provisional; Region: PRK10642 406425011176 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011177 putative substrate translocation pore; other site 406425011178 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 406425011179 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425011180 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011181 Helix-turn-helix domains; Region: HTH; cl00088 406425011182 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425011183 dimerization interface [polypeptide binding]; other site 406425011184 substrate binding pocket [chemical binding]; other site 406425011185 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 406425011186 dinuclear metal binding motif [ion binding]; other site 406425011187 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425011188 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 406425011189 putative di-iron ligands [ion binding]; other site 406425011190 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 406425011191 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 406425011192 AMP-binding enzyme; Region: AMP-binding; cl15778 406425011193 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425011194 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 406425011195 Walker A/P-loop; other site 406425011196 ATP binding site [chemical binding]; other site 406425011197 Q-loop/lid; other site 406425011198 ABC transporter signature motif; other site 406425011199 Walker B; other site 406425011200 D-loop; other site 406425011201 H-loop/switch region; other site 406425011202 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425011203 FtsX-like permease family; Region: FtsX; cl15850 406425011204 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425011205 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 406425011206 dinuclear metal binding motif [ion binding]; other site 406425011207 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 406425011208 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 406425011209 dimer interface [polypeptide binding]; other site 406425011210 active site 406425011211 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 406425011212 dimer interface [polypeptide binding]; other site 406425011213 active site 406425011214 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425011215 catalytic residues [active] 406425011216 substrate binding site [chemical binding]; other site 406425011217 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 406425011218 AMP-binding enzyme; Region: AMP-binding; cl15778 406425011219 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425011220 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425011221 active site 406425011222 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425011223 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 406425011224 citrylCoA binding site [chemical binding]; other site 406425011225 oxalacetate binding site [chemical binding]; other site 406425011226 coenzyme A binding site [chemical binding]; other site 406425011227 catalytic triad [active] 406425011228 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425011229 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425011230 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 406425011231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425011232 Walker A/P-loop; other site 406425011233 ATP binding site [chemical binding]; other site 406425011234 Q-loop/lid; other site 406425011235 ABC transporter signature motif; other site 406425011236 Walker B; other site 406425011237 D-loop; other site 406425011238 H-loop/switch region; other site 406425011239 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425011240 FAD binding domain; Region: FAD_binding_4; pfam01565 406425011241 DctM-like transporters; Region: DctM; pfam06808 406425011242 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 406425011243 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 406425011244 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 406425011245 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 406425011246 Helix-turn-helix domains; Region: HTH; cl00088 406425011247 dimerization interface [polypeptide binding]; other site 406425011248 DNA binding residues [nucleotide binding] 406425011249 cinnamoyl-CoA reductase; Region: PLN02214 406425011250 flavonoid reductase (FR), extended (e) SDRs; Region: FR_SDR_e; cd08958 406425011251 NADP binding site [chemical binding]; other site 406425011252 substrate binding site [chemical binding]; other site 406425011253 active site 406425011254 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425011255 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425011256 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 406425011257 homotrimer interaction site [polypeptide binding]; other site 406425011258 putative active site [active] 406425011259 H-NS histone family; Region: Histone_HNS; pfam00816 406425011260 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425011261 Cupin domain; Region: Cupin_2; cl09118 406425011262 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011263 Helix-turn-helix domains; Region: HTH; cl00088 406425011264 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011265 dimerization interface [polypeptide binding]; other site 406425011266 LysE type translocator; Region: LysE; cl00565 406425011267 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425011268 Helix-turn-helix domains; Region: HTH; cl00088 406425011269 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011270 dimerization interface [polypeptide binding]; other site 406425011271 Uncharacterized conserved protein [Function unknown]; Region: COG3268 406425011272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011273 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 406425011274 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 406425011275 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425011276 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425011277 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425011278 dimer interface [polypeptide binding]; other site 406425011279 putative CheW interface [polypeptide binding]; other site 406425011280 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425011281 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425011282 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425011283 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011284 Helix-turn-helix domains; Region: HTH; cl00088 406425011285 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011286 dimerization interface [polypeptide binding]; other site 406425011287 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425011288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011289 Helix-turn-helix domains; Region: HTH; cl00088 406425011290 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425011291 putative effector binding pocket; other site 406425011292 putative dimerization interface [polypeptide binding]; other site 406425011293 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425011294 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425011295 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425011296 active site 406425011297 catalytic tetrad [active] 406425011298 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425011299 Helix-turn-helix domains; Region: HTH; cl00088 406425011300 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 406425011301 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 406425011302 Active site cavity [active] 406425011303 catalytic acid [active] 406425011304 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 406425011305 Helix-turn-helix domains; Region: HTH; cl00088 406425011306 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 406425011307 putative dimerization interface [polypeptide binding]; other site 406425011308 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425011309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011310 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425011311 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 406425011312 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 406425011313 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425011314 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011315 substrate binding pocket [chemical binding]; other site 406425011316 membrane-bound complex binding site; other site 406425011317 hinge residues; other site 406425011318 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425011319 Helix-turn-helix domains; Region: HTH; cl00088 406425011320 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425011321 dimerization interface [polypeptide binding]; other site 406425011322 substrate binding pocket [chemical binding]; other site 406425011323 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 406425011324 putative hydrophobic ligand binding site [chemical binding]; other site 406425011325 protein interface [polypeptide binding]; other site 406425011326 gate; other site 406425011327 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425011328 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425011329 active site 406425011330 catalytic tetrad [active] 406425011331 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425011332 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425011333 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011334 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011335 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 406425011336 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425011337 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011338 Helix-turn-helix domains; Region: HTH; cl00088 406425011339 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011340 dimerization interface [polypeptide binding]; other site 406425011341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011342 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425011343 NAD(P) binding site [chemical binding]; other site 406425011344 active site 406425011345 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425011346 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 406425011347 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 406425011348 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425011349 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425011350 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 406425011351 Uncharacterized conserved protein [Function unknown]; Region: COG5476 406425011352 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 406425011353 MlrC C-terminus; Region: MlrC_C; pfam07171 406425011354 allantoate amidohydrolase; Reviewed; Region: PRK12893 406425011355 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425011356 active site 406425011357 metal binding site [ion binding]; metal-binding site 406425011358 dimer interface [polypeptide binding]; other site 406425011359 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425011360 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425011361 Walker A/P-loop; other site 406425011362 ATP binding site [chemical binding]; other site 406425011363 Q-loop/lid; other site 406425011364 ABC transporter signature motif; other site 406425011365 Walker B; other site 406425011366 D-loop; other site 406425011367 H-loop/switch region; other site 406425011368 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425011369 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425011370 Walker A/P-loop; other site 406425011371 ATP binding site [chemical binding]; other site 406425011372 Q-loop/lid; other site 406425011373 ABC transporter signature motif; other site 406425011374 Walker B; other site 406425011375 D-loop; other site 406425011376 H-loop/switch region; other site 406425011377 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425011378 TM-ABC transporter signature motif; other site 406425011379 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425011380 TM-ABC transporter signature motif; other site 406425011381 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425011382 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 406425011383 putative ligand binding site [chemical binding]; other site 406425011384 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425011385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011386 DNA-binding site [nucleotide binding]; DNA binding site 406425011387 FCD domain; Region: FCD; cl11656 406425011388 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 406425011389 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425011390 NAD binding site [chemical binding]; other site 406425011391 catalytic residues [active] 406425011392 hypothetical protein; Provisional; Region: PRK06541 406425011393 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425011394 inhibitor-cofactor binding pocket; inhibition site 406425011395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011396 catalytic residue [active] 406425011397 amino acid transporter; Region: 2A0306; TIGR00909 406425011398 Spore germination protein; Region: Spore_permease; cl15802 406425011399 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425011400 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425011401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011402 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011403 dimer interface [polypeptide binding]; other site 406425011404 conserved gate region; other site 406425011405 putative PBP binding loops; other site 406425011406 ABC-ATPase subunit interface; other site 406425011407 NMT1-like family; Region: NMT1_2; cl15260 406425011408 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 406425011409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011410 dimer interface [polypeptide binding]; other site 406425011411 conserved gate region; other site 406425011412 putative PBP binding loops; other site 406425011413 ABC-ATPase subunit interface; other site 406425011414 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 406425011415 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 406425011416 Walker A/P-loop; other site 406425011417 ATP binding site [chemical binding]; other site 406425011418 Q-loop/lid; other site 406425011419 ABC transporter signature motif; other site 406425011420 Walker B; other site 406425011421 D-loop; other site 406425011422 H-loop/switch region; other site 406425011423 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 406425011424 FOG: CBS domain [General function prediction only]; Region: COG0517 406425011425 Predicted transcriptional regulator [Transcription]; Region: COG3355 406425011426 Helix-turn-helix domains; Region: HTH; cl00088 406425011427 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425011428 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425011429 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425011430 benzoate transport; Region: 2A0115; TIGR00895 406425011431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011432 putative substrate translocation pore; other site 406425011433 H-NS histone family; Region: Histone_HNS; pfam00816 406425011434 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425011435 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 406425011436 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425011437 putative active site [active] 406425011438 putative NTP binding site [chemical binding]; other site 406425011439 putative nucleic acid binding site [nucleotide binding]; other site 406425011440 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425011441 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011442 DNA-binding site [nucleotide binding]; DNA binding site 406425011443 UTRA domain; Region: UTRA; cl01230 406425011444 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 406425011445 active sites [active] 406425011446 tetramer interface [polypeptide binding]; other site 406425011447 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425011448 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425011449 Walker A/P-loop; other site 406425011450 ATP binding site [chemical binding]; other site 406425011451 Q-loop/lid; other site 406425011452 ABC transporter signature motif; other site 406425011453 Walker B; other site 406425011454 D-loop; other site 406425011455 H-loop/switch region; other site 406425011456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011457 dimer interface [polypeptide binding]; other site 406425011458 conserved gate region; other site 406425011459 putative PBP binding loops; other site 406425011460 ABC-ATPase subunit interface; other site 406425011461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425011462 dimer interface [polypeptide binding]; other site 406425011463 conserved gate region; other site 406425011464 putative PBP binding loops; other site 406425011465 ABC-ATPase subunit interface; other site 406425011466 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425011467 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011468 substrate binding pocket [chemical binding]; other site 406425011469 membrane-bound complex binding site; other site 406425011470 hinge residues; other site 406425011471 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 406425011472 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 406425011473 NADP binding site [chemical binding]; other site 406425011474 active site 406425011475 putative substrate binding site [chemical binding]; other site 406425011476 DoxX; Region: DoxX; cl00976 406425011477 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 406425011478 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 406425011479 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 406425011480 Nitrate and nitrite sensing; Region: NIT; pfam08376 406425011481 ANTAR domain; Region: ANTAR; cl04297 406425011482 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 406425011483 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425011484 inhibitor site; inhibition site 406425011485 active site 406425011486 dimer interface [polypeptide binding]; other site 406425011487 catalytic residue [active] 406425011488 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011489 D-galactonate transporter; Region: 2A0114; TIGR00893 406425011490 putative substrate translocation pore; other site 406425011491 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425011492 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 406425011493 substrate binding site [chemical binding]; other site 406425011494 dimer interface [polypeptide binding]; other site 406425011495 ATP binding site [chemical binding]; other site 406425011496 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425011497 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425011498 DNA binding site [nucleotide binding] 406425011499 domain linker motif; other site 406425011500 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 406425011501 putative dimerization interface [polypeptide binding]; other site 406425011502 putative ligand binding site [chemical binding]; other site 406425011503 Fic family protein [Function unknown]; Region: COG3177 406425011504 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 406425011505 Fic/DOC family; Region: Fic; cl00960 406425011506 Helix-turn-helix domains; Region: HTH; cl00088 406425011507 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425011508 Helix-turn-helix domains; Region: HTH; cl00088 406425011509 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425011510 putative effector binding pocket; other site 406425011511 dimerization interface [polypeptide binding]; other site 406425011512 Pirin-related protein [General function prediction only]; Region: COG1741 406425011513 Cupin domain; Region: Cupin_2; cl09118 406425011514 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425011515 LrgB-like family; Region: LrgB; cl00596 406425011516 LrgA family; Region: LrgA; cl00608 406425011517 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425011518 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425011519 substrate binding pocket [chemical binding]; other site 406425011520 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425011521 OsmC-like protein; Region: OsmC; cl00767 406425011522 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425011523 Helix-turn-helix domains; Region: HTH; cl00088 406425011524 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425011525 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 406425011526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425011527 Walker A/P-loop; other site 406425011528 ATP binding site [chemical binding]; other site 406425011529 Q-loop/lid; other site 406425011530 ABC transporter signature motif; other site 406425011531 Walker B; other site 406425011532 D-loop; other site 406425011533 H-loop/switch region; other site 406425011534 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425011535 trimer interface [polypeptide binding]; other site 406425011536 eyelet of channel; other site 406425011537 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425011538 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 406425011539 putative C-terminal domain interface [polypeptide binding]; other site 406425011540 putative GSH binding site (G-site) [chemical binding]; other site 406425011541 putative dimer interface [polypeptide binding]; other site 406425011542 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 406425011543 putative N-terminal domain interface [polypeptide binding]; other site 406425011544 putative dimer interface [polypeptide binding]; other site 406425011545 putative substrate binding pocket (H-site) [chemical binding]; other site 406425011546 Acyltransferase family; Region: Acyl_transf_3; pfam01757 406425011547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011548 Helix-turn-helix domains; Region: HTH; cl00088 406425011549 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011550 dimerization interface [polypeptide binding]; other site 406425011551 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 406425011552 EamA-like transporter family; Region: EamA; cl01037 406425011553 EamA-like transporter family; Region: EamA; cl01037 406425011554 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425011555 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425011556 dimerization interface [polypeptide binding]; other site 406425011557 ligand binding site [chemical binding]; other site 406425011558 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 406425011559 FAD binding domain; Region: FAD_binding_4; pfam01565 406425011560 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425011561 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011562 Helix-turn-helix domains; Region: HTH; cl00088 406425011563 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011564 dimerization interface [polypeptide binding]; other site 406425011565 Helix-turn-helix domains; Region: HTH; cl00088 406425011566 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011567 dimerization interface [polypeptide binding]; other site 406425011568 LysE type translocator; Region: LysE; cl00565 406425011569 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 406425011570 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425011571 active site 406425011572 dimer interface [polypeptide binding]; other site 406425011573 non-prolyl cis peptide bond; other site 406425011574 insertion regions; other site 406425011575 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425011576 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 406425011577 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425011578 Walker A motif; other site 406425011579 ATP binding site [chemical binding]; other site 406425011580 Walker B motif; other site 406425011581 arginine finger; other site 406425011582 Helix-turn-helix domains; Region: HTH; cl00088 406425011583 dihydroxyacetone kinase; Provisional; Region: PRK14479 406425011584 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 406425011585 DAK2 domain; Region: Dak2; cl03685 406425011586 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 406425011587 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011588 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425011589 putative substrate translocation pore; other site 406425011590 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425011591 Helix-turn-helix domains; Region: HTH; cl00088 406425011592 DNA-binding site [nucleotide binding]; DNA binding site 406425011593 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425011594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011595 homodimer interface [polypeptide binding]; other site 406425011596 catalytic residue [active] 406425011597 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 406425011598 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425011599 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425011600 hypothetical protein; Provisional; Region: PRK07482 406425011601 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425011602 inhibitor-cofactor binding pocket; inhibition site 406425011603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011604 catalytic residue [active] 406425011605 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425011606 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425011607 tetramerization interface [polypeptide binding]; other site 406425011608 NAD(P) binding site [chemical binding]; other site 406425011609 catalytic residues [active] 406425011610 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425011611 Helix-turn-helix domains; Region: HTH; cl00088 406425011612 AsnC family; Region: AsnC_trans_reg; pfam01037 406425011613 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 406425011614 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 406425011615 putative active site [active] 406425011616 Zn binding site [ion binding]; other site 406425011617 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 406425011618 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 406425011619 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 406425011620 active site 406425011621 ectoine utilization protein EutC; Validated; Region: PRK08291 406425011622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011623 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425011624 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 406425011625 tetramer interface [polypeptide binding]; other site 406425011626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011627 catalytic residue [active] 406425011628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425011629 DNA-binding site [nucleotide binding]; DNA binding site 406425011630 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425011631 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425011632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425011633 homodimer interface [polypeptide binding]; other site 406425011634 catalytic residue [active] 406425011635 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425011636 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425011637 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425011638 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425011639 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425011640 active site 406425011641 Uncharacterized conserved protein [Function unknown]; Region: COG3777 406425011642 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425011643 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425011644 active site 2 [active] 406425011645 active site 1 [active] 406425011646 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425011647 Helix-turn-helix domains; Region: HTH; cl00088 406425011648 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425011649 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 406425011650 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 406425011651 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 406425011652 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011653 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011654 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425011655 TOBE domain; Region: TOBE_2; cl01440 406425011656 TOBE domain; Region: TOBE_2; cl01440 406425011657 NifQ; Region: NifQ; pfam04891 406425011658 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 406425011659 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 406425011660 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425011661 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425011662 Helix-turn-helix domains; Region: HTH; cl00088 406425011663 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 406425011664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425011665 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425011666 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425011667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011668 ParA-like protein; Provisional; Region: PHA02518 406425011669 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425011670 P-loop; other site 406425011671 Magnesium ion binding site [ion binding]; other site 406425011672 ParB-like nuclease domain; Region: ParBc; cl02129 406425011673 ParB-like partition proteins; Region: parB_part; TIGR00180 406425011674 Initiator Replication protein; Region: Rep_3; cl03080 406425011675 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425011676 Helix-turn-helix domains; Region: HTH; cl00088 406425011677 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425011678 dimerization interface [polypeptide binding]; other site 406425011679 substrate binding pocket [chemical binding]; other site 406425011680 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 406425011681 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 406425011682 GDP-binding site [chemical binding]; other site 406425011683 ACT binding site; other site 406425011684 IMP binding site; other site 406425011685 transcriptional regulator; Provisional; Region: PRK10632 406425011686 Helix-turn-helix domains; Region: HTH; cl00088 406425011687 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425011688 putative effector binding pocket; other site 406425011689 dimerization interface [polypeptide binding]; other site 406425011690 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425011691 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425011692 substrate binding pocket [chemical binding]; other site 406425011693 membrane-bound complex binding site; other site 406425011694 hinge residues; other site 406425011695 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425011696 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425011697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011698 Helix-turn-helix domains; Region: HTH; cl00088 406425011699 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011700 dimerization interface [polypeptide binding]; other site 406425011701 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 406425011702 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011703 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425011704 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425011705 Protein export membrane protein; Region: SecD_SecF; cl14618 406425011706 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425011707 Dienelactone hydrolase family; Region: DLH; pfam01738 406425011708 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425011709 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425011710 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425011711 conserved cys residue [active] 406425011712 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011714 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425011715 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 406425011716 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 406425011717 RES domain; Region: RES; cl02411 406425011718 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425011719 active site 406425011720 Int/Topo IB signature motif; other site 406425011721 DNA binding site [nucleotide binding] 406425011722 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 406425011723 xanthine permease; Region: pbuX; TIGR03173 406425011724 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 406425011725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011726 Helix-turn-helix domains; Region: HTH; cl00088 406425011727 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011728 dimerization interface [polypeptide binding]; other site 406425011729 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 406425011730 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425011731 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 406425011732 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 406425011733 active site 406425011734 metal binding site [ion binding]; metal-binding site 406425011735 DNA binding site [nucleotide binding] 406425011736 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425011737 AAA domain; Region: AAA_27; pfam13514 406425011738 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425011739 Protein of unknown function (DUF429); Region: DUF429; cl12046 406425011740 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425011741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425011742 Coenzyme A binding pocket [chemical binding]; other site 406425011743 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425011744 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011746 acetyl-CoA synthetase; Provisional; Region: PRK04319 406425011747 AMP-binding enzyme; Region: AMP-binding; cl15778 406425011748 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425011749 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425011750 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 406425011751 NAD binding site [chemical binding]; other site 406425011752 homodimer interface [polypeptide binding]; other site 406425011753 homotetramer interface [polypeptide binding]; other site 406425011754 active site 406425011755 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 406425011756 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425011757 dimer interface [polypeptide binding]; other site 406425011758 active site 406425011759 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 406425011760 Helix-turn-helix domains; Region: HTH; cl00088 406425011761 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 406425011762 allantoate amidohydrolase; Reviewed; Region: PRK09290 406425011763 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425011764 active site 406425011765 metal binding site [ion binding]; metal-binding site 406425011766 dimer interface [polypeptide binding]; other site 406425011767 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 406425011768 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 406425011769 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 406425011770 homodimer interface [polypeptide binding]; other site 406425011771 active site 406425011772 FMN binding site [chemical binding]; other site 406425011773 substrate binding site [chemical binding]; other site 406425011774 4Fe-4S binding domain; Region: Fer4; cl02805 406425011775 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 406425011776 Na binding site [ion binding]; other site 406425011777 putative substrate binding site [chemical binding]; other site 406425011778 phenylhydantoinase; Validated; Region: PRK08323 406425011779 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 406425011780 tetramer interface [polypeptide binding]; other site 406425011781 active site 406425011782 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 406425011783 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 406425011784 Nucleoside recognition; Region: Gate; cl00486 406425011785 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 406425011786 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 406425011787 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 406425011788 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 406425011789 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 406425011790 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 406425011791 active site 406425011792 catalytic motif [active] 406425011793 Zn binding site [ion binding]; other site 406425011794 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425011795 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425011796 [2Fe-2S] cluster binding site [ion binding]; other site 406425011797 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 406425011798 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 406425011799 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 406425011800 catalytic residues [active] 406425011801 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 406425011802 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 406425011803 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011804 Helix-turn-helix domains; Region: HTH; cl00088 406425011805 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425011806 putative effector binding pocket; other site 406425011807 putative dimerization interface [polypeptide binding]; other site 406425011808 short chain dehydrogenase; Provisional; Region: PRK09291 406425011809 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425011810 NADP binding site [chemical binding]; other site 406425011811 active site 406425011812 steroid binding site; other site 406425011813 Domain of unknown function (DUF336); Region: DUF336; cl01249 406425011814 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 406425011815 oligomerisation interface [polypeptide binding]; other site 406425011816 mobile loop; other site 406425011817 roof hairpin; other site 406425011818 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 406425011819 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 406425011820 ring oligomerisation interface [polypeptide binding]; other site 406425011821 ATP/Mg binding site [chemical binding]; other site 406425011822 stacking interactions; other site 406425011823 hinge regions; other site 406425011824 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 406425011825 dimanganese center [ion binding]; other site 406425011826 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 406425011827 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425011828 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425011829 Helix-turn-helix domains; Region: HTH; cl00088 406425011830 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425011831 Sel1 repeat; Region: Sel1; cl02723 406425011832 TolB amino-terminal domain; Region: TolB_N; cl00639 406425011833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425011834 Helix-turn-helix domains; Region: HTH; cl00088 406425011835 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425011836 dimerization interface [polypeptide binding]; other site 406425011837 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425011838 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425011839 inhibitor site; inhibition site 406425011840 active site 406425011841 dimer interface [polypeptide binding]; other site 406425011842 catalytic residue [active] 406425011843 benzoate transport; Region: 2A0115; TIGR00895 406425011844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011845 putative substrate translocation pore; other site 406425011846 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425011847 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425011848 trimer interface [polypeptide binding]; other site 406425011849 eyelet of channel; other site 406425011850 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 406425011851 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 406425011852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425011853 metal binding site [ion binding]; metal-binding site 406425011854 active site 406425011855 I-site; other site 406425011856 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425011857 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 406425011858 Bacterial sugar transferase; Region: Bac_transf; cl00939 406425011859 polysaccharide export protein Wza; Provisional; Region: PRK15078 406425011860 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425011861 Low molecular weight phosphatase family; Region: LMWPc; cl00105 406425011862 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425011863 active site 406425011864 tyrosine kinase; Provisional; Region: PRK11519 406425011865 Chain length determinant protein; Region: Wzz; cl15801 406425011866 Chain length determinant protein; Region: Wzz; cl15801 406425011867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425011868 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 406425011869 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425011870 putative ADP-binding pocket [chemical binding]; other site 406425011871 MatE; Region: MatE; cl10513 406425011872 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 406425011873 active site 406425011874 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425011875 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 406425011876 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425011877 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425011878 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 406425011879 active site 406425011880 catalytic residues [active] 406425011881 H-NS histone family; Region: Histone_HNS; pfam00816 406425011882 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425011883 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425011884 Helix-turn-helix domains; Region: HTH; cl00088 406425011885 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425011886 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425011887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011888 active site 406425011889 phosphorylation site [posttranslational modification] 406425011890 intermolecular recognition site; other site 406425011891 dimerization interface [polypeptide binding]; other site 406425011892 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425011893 DNA binding site [nucleotide binding] 406425011894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425011895 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425011896 dimer interface [polypeptide binding]; other site 406425011897 phosphorylation site [posttranslational modification] 406425011898 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425011899 ATP binding site [chemical binding]; other site 406425011900 Mg2+ binding site [ion binding]; other site 406425011901 G-X-G motif; other site 406425011902 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425011903 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425011904 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011905 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 406425011906 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425011907 active site 406425011908 motif I; other site 406425011909 motif II; other site 406425011910 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 406425011911 AMP-binding enzyme; Region: AMP-binding; cl15778 406425011912 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425011913 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425011914 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425011915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011916 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425011917 Moco binding site; other site 406425011918 metal coordination site [ion binding]; other site 406425011919 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 406425011920 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 406425011921 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 406425011922 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425011923 active site 406425011924 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 406425011925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011926 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 406425011927 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 406425011928 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 406425011929 beta-ketothiolase; Provisional; Region: PRK09051 406425011930 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425011931 dimer interface [polypeptide binding]; other site 406425011932 active site 406425011933 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 406425011934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011935 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425011936 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425011937 Helix-turn-helix domains; Region: HTH; cl00088 406425011938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425011939 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 406425011940 Cupin domain; Region: Cupin_2; cl09118 406425011941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425011942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425011943 EamA-like transporter family; Region: EamA; cl01037 406425011944 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425011945 EamA-like transporter family; Region: EamA; cl01037 406425011946 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 406425011947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425011948 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 406425011949 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 406425011950 FHIPEP family; Region: FHIPEP; pfam00771 406425011951 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 406425011952 catalytic residues [active] 406425011953 catalytic nucleophile [active] 406425011954 Presynaptic Site I dimer interface [polypeptide binding]; other site 406425011955 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 406425011956 Synaptic Flat tetramer interface [polypeptide binding]; other site 406425011957 Synaptic Site I dimer interface [polypeptide binding]; other site 406425011958 Helix-turn-helix domains; Region: HTH; cl00088 406425011959 DNA-binding interface [nucleotide binding]; DNA binding site 406425011960 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 406425011961 catalytic residues [active] 406425011962 catalytic nucleophile [active] 406425011963 Presynaptic Site I dimer interface [polypeptide binding]; other site 406425011964 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 406425011965 Synaptic Flat tetramer interface [polypeptide binding]; other site 406425011966 Synaptic Site I dimer interface [polypeptide binding]; other site 406425011967 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 406425011968 DNA-binding interface [nucleotide binding]; DNA binding site 406425011969 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425011970 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425011971 MULE transposase domain; Region: MULE; pfam10551 406425011972 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425011973 ligand binding site [chemical binding]; other site 406425011974 H-NS histone family; Region: Histone_HNS; pfam00816 406425011975 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425011976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425011977 active site 406425011978 phosphorylation site [posttranslational modification] 406425011979 intermolecular recognition site; other site 406425011980 dimerization interface [polypeptide binding]; other site 406425011981 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425011982 DNA binding site [nucleotide binding] 406425011983 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425011984 dimer interface [polypeptide binding]; other site 406425011985 ligand binding site [chemical binding]; other site 406425011986 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425011987 PAS domain; Region: PAS_9; pfam13426 406425011988 putative active site [active] 406425011989 heme pocket [chemical binding]; other site 406425011990 GAF domain; Region: GAF_2; pfam13185 406425011991 GAF domain; Region: GAF; cl15785 406425011992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425011993 metal binding site [ion binding]; metal-binding site 406425011994 active site 406425011995 I-site; other site 406425011996 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425011997 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 406425011998 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425011999 Helix-turn-helix domains; Region: HTH; cl00088 406425012000 AsnC family; Region: AsnC_trans_reg; pfam01037 406425012001 homoserine dehydrogenase; Provisional; Region: PRK06270 406425012002 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 406425012003 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 406425012004 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425012005 NAD(P) binding site [chemical binding]; other site 406425012006 catalytic residues [active] 406425012007 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425012008 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425012009 Walker A/P-loop; other site 406425012010 ATP binding site [chemical binding]; other site 406425012011 Q-loop/lid; other site 406425012012 ABC transporter signature motif; other site 406425012013 Walker B; other site 406425012014 D-loop; other site 406425012015 H-loop/switch region; other site 406425012016 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425012017 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425012018 substrate binding pocket [chemical binding]; other site 406425012019 membrane-bound complex binding site; other site 406425012020 hinge residues; other site 406425012021 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425012022 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012023 dimer interface [polypeptide binding]; other site 406425012024 conserved gate region; other site 406425012025 putative PBP binding loops; other site 406425012026 ABC-ATPase subunit interface; other site 406425012027 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425012028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012029 dimer interface [polypeptide binding]; other site 406425012030 conserved gate region; other site 406425012031 putative PBP binding loops; other site 406425012032 ABC-ATPase subunit interface; other site 406425012033 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 406425012034 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 406425012035 homodimer interface [polypeptide binding]; other site 406425012036 substrate-cofactor binding pocket; other site 406425012037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012038 catalytic residue [active] 406425012039 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 406425012040 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 406425012041 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425012042 Helix-turn-helix domains; Region: HTH; cl00088 406425012043 AsnC family; Region: AsnC_trans_reg; pfam01037 406425012044 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425012045 Helix-turn-helix domains; Region: HTH; cl00088 406425012046 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425012047 dimerization interface [polypeptide binding]; other site 406425012048 substrate binding pocket [chemical binding]; other site 406425012049 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425012050 Helix-turn-helix domains; Region: HTH; cl00088 406425012051 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 406425012052 NmrA-like family; Region: NmrA; pfam05368 406425012053 NAD(P) binding site [chemical binding]; other site 406425012054 active site lysine 406425012055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 406425012056 Transposase; Region: DDE_Tnp_ISL3; pfam01610 406425012057 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 406425012058 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012059 substrate binding site [chemical binding]; other site 406425012060 oxyanion hole (OAH) forming residues; other site 406425012061 trimer interface [polypeptide binding]; other site 406425012062 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 406425012063 AMP-binding enzyme; Region: AMP-binding; cl15778 406425012064 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425012065 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425012066 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425012067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012068 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425012069 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425012070 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425012071 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425012072 conserved cys residue [active] 406425012073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012075 Helix-turn-helix domains; Region: HTH; cl00088 406425012076 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425012077 dimerization interface [polypeptide binding]; other site 406425012078 substrate binding pocket [chemical binding]; other site 406425012079 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425012080 classical (c) SDRs; Region: SDR_c; cd05233 406425012081 NAD(P) binding site [chemical binding]; other site 406425012082 active site 406425012083 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425012084 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 406425012085 homodecamer interface [polypeptide binding]; other site 406425012086 GTP cyclohydrolase I; Provisional; Region: PLN03044 406425012087 active site 406425012088 putative catalytic site residues [active] 406425012089 zinc binding site [ion binding]; other site 406425012090 GTP-CH-I/GFRP interaction surface; other site 406425012091 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 406425012092 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425012093 FMN binding site [chemical binding]; other site 406425012094 substrate binding site [chemical binding]; other site 406425012095 putative catalytic residue [active] 406425012096 beta-ketothiolase; Provisional; Region: PRK09051 406425012097 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425012098 dimer interface [polypeptide binding]; other site 406425012099 active site 406425012100 acyl-CoA synthetase; Provisional; Region: PRK12582 406425012101 AMP-binding enzyme; Region: AMP-binding; cl15778 406425012102 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012103 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425012104 FAD binding site [chemical binding]; other site 406425012105 substrate binding site [chemical binding]; other site 406425012106 catalytic base [active] 406425012107 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012108 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012109 active site 406425012110 enoyl-CoA hydratase; Provisional; Region: PRK06190 406425012111 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012112 substrate binding site [chemical binding]; other site 406425012113 oxyanion hole (OAH) forming residues; other site 406425012114 trimer interface [polypeptide binding]; other site 406425012115 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012116 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012117 substrate binding site [chemical binding]; other site 406425012118 oxyanion hole (OAH) forming residues; other site 406425012119 trimer interface [polypeptide binding]; other site 406425012120 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012121 classical (c) SDRs; Region: SDR_c; cd05233 406425012122 NAD(P) binding site [chemical binding]; other site 406425012123 active site 406425012124 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 406425012125 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425012126 FMN binding site [chemical binding]; other site 406425012127 substrate binding site [chemical binding]; other site 406425012128 putative catalytic residue [active] 406425012129 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425012130 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425012131 DNA binding residues [nucleotide binding] 406425012132 dimerization interface [polypeptide binding]; other site 406425012133 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012134 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 406425012135 substrate binding site [chemical binding]; other site 406425012136 oxyanion hole (OAH) forming residues; other site 406425012137 trimer interface [polypeptide binding]; other site 406425012138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012139 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012140 NAD(P) binding site [chemical binding]; other site 406425012141 active site 406425012142 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012143 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012144 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012145 active site 2 [active] 406425012146 active site 1 [active] 406425012147 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425012148 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012149 active site 406425012150 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 406425012151 DUF35 OB-fold domain; Region: DUF35; pfam01796 406425012152 thiolase; Provisional; Region: PRK06158 406425012153 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 406425012154 active site 406425012155 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012156 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012157 substrate binding site [chemical binding]; other site 406425012158 oxyanion hole (OAH) forming residues; other site 406425012159 trimer interface [polypeptide binding]; other site 406425012160 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012161 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012162 substrate binding site [chemical binding]; other site 406425012163 oxyanion hole (OAH) forming residues; other site 406425012164 trimer interface [polypeptide binding]; other site 406425012165 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012166 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012167 substrate binding site [chemical binding]; other site 406425012168 oxyanion hole (OAH) forming residues; other site 406425012169 trimer interface [polypeptide binding]; other site 406425012170 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 406425012171 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 406425012172 NAD(P) binding site [chemical binding]; other site 406425012173 substrate binding site [chemical binding]; other site 406425012174 homotetramer interface [polypeptide binding]; other site 406425012175 active site 406425012176 homodimer interface [polypeptide binding]; other site 406425012177 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012178 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012179 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012180 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425012181 FAD binding site [chemical binding]; other site 406425012182 substrate binding site [chemical binding]; other site 406425012183 catalytic base [active] 406425012184 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012185 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012186 active site 406425012187 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425012188 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012189 active site 406425012190 enoyl-CoA hydratase; Provisional; Region: PRK06210 406425012191 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012192 substrate binding site [chemical binding]; other site 406425012193 oxyanion hole (OAH) forming residues; other site 406425012194 trimer interface [polypeptide binding]; other site 406425012195 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012196 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012197 active site 2 [active] 406425012198 active site 1 [active] 406425012199 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012200 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 406425012201 FAD binding site [chemical binding]; other site 406425012202 substrate binding site [chemical binding]; other site 406425012203 catalytic base [active] 406425012204 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012205 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012206 active site 406425012207 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 406425012208 Helix-turn-helix domains; Region: HTH; cl00088 406425012209 Integrase core domain; Region: rve; cl01316 406425012210 Integrase core domain; Region: rve_3; cl15866 406425012211 Helix-turn-helix domains; Region: HTH; cl00088 406425012212 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012213 Helix-turn-helix domains; Region: HTH; cl00088 406425012214 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 406425012215 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 406425012216 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 406425012217 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425012218 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 406425012219 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425012220 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 406425012221 NADP binding site [chemical binding]; other site 406425012222 homodimer interface [polypeptide binding]; other site 406425012223 active site 406425012224 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 406425012225 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425012226 putative NAD(P) binding site [chemical binding]; other site 406425012227 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 406425012228 Ligand binding site [chemical binding]; other site 406425012229 Electron transfer flavoprotein domain; Region: ETF; pfam01012 406425012230 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 406425012231 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 406425012232 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 406425012233 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425012234 [2Fe-2S] cluster binding site [ion binding]; other site 406425012235 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 406425012236 putative alpha subunit interface [polypeptide binding]; other site 406425012237 putative active site [active] 406425012238 putative substrate binding site [chemical binding]; other site 406425012239 Fe binding site [ion binding]; other site 406425012240 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 406425012241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012242 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 406425012243 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 406425012244 tetramer interface [polypeptide binding]; other site 406425012245 TPP-binding site [chemical binding]; other site 406425012246 heterodimer interface [polypeptide binding]; other site 406425012247 phosphorylation loop region [posttranslational modification] 406425012248 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 406425012249 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 406425012250 alpha subunit interface [polypeptide binding]; other site 406425012251 TPP binding site [chemical binding]; other site 406425012252 heterodimer interface [polypeptide binding]; other site 406425012253 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425012254 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425012255 E3 interaction surface; other site 406425012256 lipoyl attachment site [posttranslational modification]; other site 406425012257 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 406425012258 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425012259 AMP-binding enzyme; Region: AMP-binding; cl15778 406425012260 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425012261 enoyl-CoA hydratase; Provisional; Region: PRK12478 406425012262 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012263 substrate binding site [chemical binding]; other site 406425012264 oxyanion hole (OAH) forming residues; other site 406425012265 trimer interface [polypeptide binding]; other site 406425012266 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012267 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012268 substrate binding site [chemical binding]; other site 406425012269 oxyanion hole (OAH) forming residues; other site 406425012270 trimer interface [polypeptide binding]; other site 406425012271 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 406425012272 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425012273 active site 406425012274 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 406425012275 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425012276 active site 406425012277 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 406425012278 classical (c) SDR, subgroup 12; Region: SDR_c12; cd08944 406425012279 putative NAD(P) binding site [chemical binding]; other site 406425012280 homodimer interface [polypeptide binding]; other site 406425012281 active site 406425012282 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425012283 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425012284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012285 NAD(P) binding site [chemical binding]; other site 406425012286 active site 406425012287 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425012288 catalytic loop [active] 406425012289 iron binding site [ion binding]; other site 406425012290 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 406425012291 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425012292 Helix-turn-helix domains; Region: HTH; cl00088 406425012293 Cytochrome P450; Region: p450; pfam00067 406425012294 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 406425012295 choline dehydrogenase; Validated; Region: PRK02106 406425012296 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425012297 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012298 substrate binding site [chemical binding]; other site 406425012299 oxyanion hole (OAH) forming residues; other site 406425012300 trimer interface [polypeptide binding]; other site 406425012301 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 406425012302 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425012303 Uncharacterized conserved protein [Function unknown]; Region: COG3777 406425012304 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012305 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 406425012306 active site 2 [active] 406425012307 active site 1 [active] 406425012308 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425012309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012310 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425012311 NAD(P) binding site [chemical binding]; other site 406425012312 active site 406425012313 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 406425012314 Rubredoxin [Energy production and conversion]; Region: COG1773 406425012315 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 406425012316 iron binding site [ion binding]; other site 406425012317 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 406425012318 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425012319 dimer interface [polypeptide binding]; other site 406425012320 active site 406425012321 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 406425012322 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 406425012323 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425012324 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012325 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012326 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 406425012327 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425012328 FMN binding site [chemical binding]; other site 406425012329 substrate binding site [chemical binding]; other site 406425012330 putative catalytic residue [active] 406425012331 enoyl-CoA hydratase; Provisional; Region: PRK05862 406425012332 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012333 substrate binding site [chemical binding]; other site 406425012334 oxyanion hole (OAH) forming residues; other site 406425012335 trimer interface [polypeptide binding]; other site 406425012336 enoyl-CoA hydratase; Provisional; Region: PRK06563 406425012337 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012338 substrate binding site [chemical binding]; other site 406425012339 oxyanion hole (OAH) forming residues; other site 406425012340 trimer interface [polypeptide binding]; other site 406425012341 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425012342 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425012343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012344 classical (c) SDRs; Region: SDR_c; cd05233 406425012345 NAD(P) binding site [chemical binding]; other site 406425012346 active site 406425012347 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425012348 Helix-turn-helix domains; Region: HTH; cl00088 406425012349 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425012350 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425012351 enoyl-CoA hydratase; Provisional; Region: PRK06688 406425012352 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425012353 substrate binding site [chemical binding]; other site 406425012354 oxyanion hole (OAH) forming residues; other site 406425012355 trimer interface [polypeptide binding]; other site 406425012356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012357 NAD(P) binding site [chemical binding]; other site 406425012358 active site 406425012359 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 406425012360 putative active site [active] 406425012361 putative FMN binding site [chemical binding]; other site 406425012362 putative substrate binding site [chemical binding]; other site 406425012363 putative catalytic residue [active] 406425012364 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425012365 CoenzymeA binding site [chemical binding]; other site 406425012366 subunit interaction site [polypeptide binding]; other site 406425012367 PHB binding site; other site 406425012368 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425012369 Helix-turn-helix domains; Region: HTH; cl00088 406425012370 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 406425012371 short chain dehydrogenase; Provisional; Region: PRK06180 406425012372 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425012373 NADP binding site [chemical binding]; other site 406425012374 active site 406425012375 steroid binding site; other site 406425012376 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 406425012377 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 406425012378 putative catalytic cysteine [active] 406425012379 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425012380 Helix-turn-helix domains; Region: HTH; cl00088 406425012381 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012382 classical (c) SDRs; Region: SDR_c; cd05233 406425012383 NAD(P) binding site [chemical binding]; other site 406425012384 active site 406425012385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012386 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 406425012387 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 406425012388 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 406425012389 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425012390 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425012391 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 406425012392 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425012393 non-specific DNA binding site [nucleotide binding]; other site 406425012394 salt bridge; other site 406425012395 sequence-specific DNA binding site [nucleotide binding]; other site 406425012396 Phage integrase protein; Region: DUF3701; pfam12482 406425012397 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425012398 active site 406425012399 DNA binding site [nucleotide binding] 406425012400 Int/Topo IB signature motif; other site 406425012401 H-NS histone family; Region: Histone_HNS; pfam00816 406425012402 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425012403 WYL domain; Region: WYL; cl14852 406425012404 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 406425012405 active site 406425012406 NTP binding site [chemical binding]; other site 406425012407 metal binding triad [ion binding]; metal-binding site 406425012408 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 406425012409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012410 ATP binding site [chemical binding]; other site 406425012411 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 406425012412 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 406425012413 Helix-turn-helix domains; Region: HTH; cl00088 406425012414 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 406425012415 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 406425012416 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 406425012417 Integrase core domain; Region: rve; cl01316 406425012418 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 406425012419 AAA domain; Region: AAA_22; pfam13401 406425012420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425012421 Integrase core domain; Region: rve; cl01316 406425012422 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425012423 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 406425012424 intersubunit interface [polypeptide binding]; other site 406425012425 active site 406425012426 catalytic residue [active] 406425012427 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 406425012428 Helix-turn-helix domains; Region: HTH; cl00088 406425012429 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425012430 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 406425012431 active site 406425012432 catalytic residues [active] 406425012433 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 406425012434 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012436 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 406425012437 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 406425012438 substrate binding site [chemical binding]; other site 406425012439 dimer interface [polypeptide binding]; other site 406425012440 ATP binding site [chemical binding]; other site 406425012441 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425012442 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425012443 inhibitor site; inhibition site 406425012444 active site 406425012445 dimer interface [polypeptide binding]; other site 406425012446 catalytic residue [active] 406425012447 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425012448 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 406425012449 putative active site [active] 406425012450 metal binding site [ion binding]; metal-binding site 406425012451 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 406425012452 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 406425012453 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 406425012454 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 406425012455 Na binding site [ion binding]; other site 406425012456 BNR repeat-like domain; Region: BNR_2; pfam13088 406425012457 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 406425012458 Asp-box motif; other site 406425012459 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 406425012460 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425012461 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012462 classical (c) SDRs; Region: SDR_c; cd05233 406425012463 NAD(P) binding site [chemical binding]; other site 406425012464 active site 406425012465 amino acid transporter; Region: 2A0306; TIGR00909 406425012466 Spore germination protein; Region: Spore_permease; cl15802 406425012467 Spore germination protein; Region: Spore_permease; cl15802 406425012468 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012469 putative substrate translocation pore; other site 406425012470 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425012471 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 406425012472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012473 dimer interface [polypeptide binding]; other site 406425012474 putative PBP binding loops; other site 406425012475 ABC-ATPase subunit interface; other site 406425012476 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425012477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012478 dimer interface [polypeptide binding]; other site 406425012479 conserved gate region; other site 406425012480 putative PBP binding loops; other site 406425012481 ABC-ATPase subunit interface; other site 406425012482 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425012483 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 406425012484 Walker A/P-loop; other site 406425012485 ATP binding site [chemical binding]; other site 406425012486 Q-loop/lid; other site 406425012487 ABC transporter signature motif; other site 406425012488 Walker B; other site 406425012489 D-loop; other site 406425012490 H-loop/switch region; other site 406425012491 TOBE domain; Region: TOBE_2; cl01440 406425012492 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 406425012493 active site 406425012494 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425012495 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425012496 DNA binding site [nucleotide binding] 406425012497 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425012498 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425012499 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425012500 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 406425012501 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425012502 PYR/PP interface [polypeptide binding]; other site 406425012503 dimer interface [polypeptide binding]; other site 406425012504 TPP binding site [chemical binding]; other site 406425012505 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425012506 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 406425012507 TPP-binding site [chemical binding]; other site 406425012508 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425012509 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 406425012510 histidinol dehydrogenase; Region: hisD; TIGR00069 406425012511 NAD binding site [chemical binding]; other site 406425012512 dimerization interface [polypeptide binding]; other site 406425012513 product binding site; other site 406425012514 substrate binding site [chemical binding]; other site 406425012515 zinc binding site [ion binding]; other site 406425012516 catalytic residues [active] 406425012517 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425012518 trimer interface [polypeptide binding]; other site 406425012519 eyelet of channel; other site 406425012520 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425012521 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012522 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 406425012523 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 406425012524 YCII-related domain; Region: YCII; cl00999 406425012525 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425012526 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425012527 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425012528 choline dehydrogenase; Validated; Region: PRK02106 406425012529 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425012530 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425012531 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 406425012532 conserved cys residue [active] 406425012533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012534 LysE type translocator; Region: LysE; cl00565 406425012535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012536 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 406425012537 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 406425012538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012539 This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation...; Region: Rieske_RO_Alpha_PrnD; cd03537 406425012540 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425012541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425012542 active site 406425012543 phosphorylation site [posttranslational modification] 406425012544 intermolecular recognition site; other site 406425012545 dimerization interface [polypeptide binding]; other site 406425012546 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425012547 DNA binding site [nucleotide binding] 406425012548 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425012549 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425012550 dimer interface [polypeptide binding]; other site 406425012551 phosphorylation site [posttranslational modification] 406425012552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425012553 ATP binding site [chemical binding]; other site 406425012554 Mg2+ binding site [ion binding]; other site 406425012555 G-X-G motif; other site 406425012556 Colicin-E5 Imm protein; Region: ImmE5; pfam11480 406425012557 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425012558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425012559 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425012560 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425012561 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425012562 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 406425012563 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425012564 L-asparagine permease; Provisional; Region: PRK15049 406425012565 Spore germination protein; Region: Spore_permease; cl15802 406425012566 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425012567 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425012568 substrate binding pocket [chemical binding]; other site 406425012569 membrane-bound complex binding site; other site 406425012570 hinge residues; other site 406425012571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012572 dimer interface [polypeptide binding]; other site 406425012573 conserved gate region; other site 406425012574 putative PBP binding loops; other site 406425012575 ABC-ATPase subunit interface; other site 406425012576 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425012577 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425012578 dimer interface [polypeptide binding]; other site 406425012579 conserved gate region; other site 406425012580 putative PBP binding loops; other site 406425012581 ABC-ATPase subunit interface; other site 406425012582 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425012583 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425012584 Walker A/P-loop; other site 406425012585 ATP binding site [chemical binding]; other site 406425012586 Q-loop/lid; other site 406425012587 ABC transporter signature motif; other site 406425012588 Walker B; other site 406425012589 D-loop; other site 406425012590 H-loop/switch region; other site 406425012591 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425012592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012593 FAD binding domain; Region: FAD_binding_3; pfam01494 406425012594 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425012595 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 406425012596 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 406425012597 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425012598 Helix-turn-helix domains; Region: HTH; cl00088 406425012599 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012600 dimerization interface [polypeptide binding]; other site 406425012601 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 406425012602 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 406425012603 Isochorismatase family; Region: Isochorismatase; pfam00857 406425012604 catalytic triad [active] 406425012605 dimer interface [polypeptide binding]; other site 406425012606 conserved cis-peptide bond; other site 406425012607 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 406425012608 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 406425012609 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 406425012610 active site 406425012611 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425012612 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 406425012613 Helix-turn-helix domains; Region: HTH; cl00088 406425012614 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425012615 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425012616 putative effector binding pocket; other site 406425012617 dimerization interface [polypeptide binding]; other site 406425012618 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425012619 transcriptional activator RhaR; Provisional; Region: PRK13502 406425012620 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425012621 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012622 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012623 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425012624 DNA binding site [nucleotide binding] 406425012625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425012626 Predicted ATPase [General function prediction only]; Region: COG3903 406425012627 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 406425012628 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 406425012629 active site 406425012630 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425012631 FMN binding site [chemical binding]; other site 406425012632 active site 406425012633 substrate binding site [chemical binding]; other site 406425012634 catalytic residue [active] 406425012635 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425012636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012637 putative substrate translocation pore; other site 406425012638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012639 Helix-turn-helix domains; Region: HTH; cl00088 406425012640 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425012641 putative effector binding pocket; other site 406425012642 putative dimerization interface [polypeptide binding]; other site 406425012643 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425012644 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425012645 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425012646 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425012647 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425012648 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425012649 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425012650 Cytochrome c; Region: Cytochrom_C; cl11414 406425012651 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425012652 Cytochrome c; Region: Cytochrom_C; cl11414 406425012653 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; cl09957 406425012654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012655 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 406425012656 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425012657 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425012658 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 406425012659 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425012660 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425012661 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425012662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 406425012663 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425012664 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425012665 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425012666 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425012667 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425012668 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425012669 DNA binding site [nucleotide binding] 406425012670 Predicted ATPase [General function prediction only]; Region: COG3903 406425012671 DoxX; Region: DoxX; cl00976 406425012672 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425012673 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425012674 ligand binding site [chemical binding]; other site 406425012675 flexible hinge region; other site 406425012676 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425012677 Helix-turn-helix domains; Region: HTH; cl00088 406425012678 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012679 dimerization interface [polypeptide binding]; other site 406425012680 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012681 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425012682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012683 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 406425012684 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 406425012685 active site 406425012686 catalytic residues [active] 406425012687 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 406425012688 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425012689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012690 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425012691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012692 short chain dehydrogenase; Provisional; Region: PRK06180 406425012693 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425012694 NADP binding site [chemical binding]; other site 406425012695 active site 406425012696 steroid binding site; other site 406425012697 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425012698 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425012699 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425012700 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425012701 Helix-turn-helix domains; Region: HTH; cl00088 406425012702 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012703 dimerization interface [polypeptide binding]; other site 406425012704 LysE type translocator; Region: LysE; cl00565 406425012705 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 406425012706 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425012707 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012708 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425012709 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425012710 Ligand Binding Site [chemical binding]; other site 406425012711 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 406425012712 Phage integrase protein; Region: DUF3701; pfam12482 406425012713 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 406425012714 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 406425012715 Int/Topo IB signature motif; other site 406425012716 TfoX N-terminal domain; Region: TfoX_N; cl01167 406425012717 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425012718 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425012719 DNA-binding site [nucleotide binding]; DNA binding site 406425012720 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425012721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012722 homodimer interface [polypeptide binding]; other site 406425012723 catalytic residue [active] 406425012724 hypothetical protein; Provisional; Region: PRK06126 406425012725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012726 tetracycline repressor protein TetR; Provisional; Region: PRK13756 406425012727 Helix-turn-helix domains; Region: HTH; cl00088 406425012728 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 406425012729 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 406425012730 MoaE interaction surface [polypeptide binding]; other site 406425012731 MoeB interaction surface [polypeptide binding]; other site 406425012732 thiocarboxylated glycine; other site 406425012733 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 406425012734 MoaE homodimer interface [polypeptide binding]; other site 406425012735 MoaD interaction [polypeptide binding]; other site 406425012736 active site residues [active] 406425012737 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 406425012738 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425012739 FeS/SAM binding site; other site 406425012740 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 406425012741 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 406425012742 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425012743 dimer interface [polypeptide binding]; other site 406425012744 putative functional site; other site 406425012745 putative MPT binding site; other site 406425012746 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 406425012747 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 406425012748 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 406425012749 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 406425012750 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 406425012751 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 406425012752 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425012753 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 406425012754 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425012755 Walker A motif; other site 406425012756 ATP binding site [chemical binding]; other site 406425012757 Walker B motif; other site 406425012758 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425012759 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 406425012760 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 406425012761 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425012762 active site 406425012763 ATP binding site [chemical binding]; other site 406425012764 substrate binding site [chemical binding]; other site 406425012765 activation loop (A-loop); other site 406425012766 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 406425012767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425012768 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425012769 Family description; Region: UvrD_C_2; cl15862 406425012770 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425012771 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 406425012772 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 406425012773 active site 406425012774 HIGH motif; other site 406425012775 dimer interface [polypeptide binding]; other site 406425012776 KMSKS motif; other site 406425012777 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 406425012778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012779 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 406425012780 homotrimer interaction site [polypeptide binding]; other site 406425012781 putative active site [active] 406425012782 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 406425012783 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 406425012784 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 406425012785 metal binding site [ion binding]; metal-binding site 406425012786 putative dimer interface [polypeptide binding]; other site 406425012787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425012788 Helix-turn-helix domains; Region: HTH; cl00088 406425012789 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 406425012790 putative substrate binding pocket [chemical binding]; other site 406425012791 dimerization interface [polypeptide binding]; other site 406425012792 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425012793 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 406425012794 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 406425012795 putative molybdopterin cofactor binding site [chemical binding]; other site 406425012796 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 406425012797 putative molybdopterin cofactor binding site; other site 406425012798 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 406425012799 Clp amino terminal domain; Region: Clp_N; pfam02861 406425012800 Clp amino terminal domain; Region: Clp_N; pfam02861 406425012801 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425012802 Walker A motif; other site 406425012803 ATP binding site [chemical binding]; other site 406425012804 Walker B motif; other site 406425012805 arginine finger; other site 406425012806 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425012807 Walker A motif; other site 406425012808 ATP binding site [chemical binding]; other site 406425012809 Walker B motif; other site 406425012810 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 406425012811 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 406425012812 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 406425012813 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 406425012814 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425012815 MULE transposase domain; Region: MULE; pfam10551 406425012816 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425012817 Helix-turn-helix domains; Region: HTH; cl00088 406425012818 FCD domain; Region: FCD; cl11656 406425012819 short chain dehydrogenase; Provisional; Region: PRK12829 406425012820 classical (c) SDRs; Region: SDR_c; cd05233 406425012821 NAD(P) binding site [chemical binding]; other site 406425012822 active site 406425012823 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 406425012824 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425012825 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012826 putative substrate translocation pore; other site 406425012827 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 406425012828 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 406425012829 putative ion selectivity filter; other site 406425012830 putative pore gating glutamate residue; other site 406425012831 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 406425012832 cytosine deaminase; Provisional; Region: PRK09230 406425012833 active site 406425012834 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425012835 trimer interface [polypeptide binding]; other site 406425012836 eyelet of channel; other site 406425012837 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425012838 transcriptional regulator; Provisional; Region: PRK10632 406425012839 Helix-turn-helix domains; Region: HTH; cl00088 406425012840 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425012841 putative effector binding pocket; other site 406425012842 dimerization interface [polypeptide binding]; other site 406425012843 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425012844 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 406425012845 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 406425012846 homodimer interface [polypeptide binding]; other site 406425012847 homotetramer interface [polypeptide binding]; other site 406425012848 active site pocket [active] 406425012849 cleavage site 406425012850 amino acid transporter; Region: 2A0306; TIGR00909 406425012851 Spore germination protein; Region: Spore_permease; cl15802 406425012852 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425012853 DNA binding residues [nucleotide binding] 406425012854 dimerization interface [polypeptide binding]; other site 406425012855 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425012856 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 406425012857 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425012858 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425012859 tetrameric interface [polypeptide binding]; other site 406425012860 NAD binding site [chemical binding]; other site 406425012861 catalytic residues [active] 406425012862 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 406425012863 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425012864 inhibitor-cofactor binding pocket; inhibition site 406425012865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425012866 catalytic residue [active] 406425012867 Helix-turn-helix domains; Region: HTH; cl00088 406425012868 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425012869 dimerization interface [polypeptide binding]; other site 406425012870 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425012871 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012872 putative substrate translocation pore; other site 406425012873 Helix-turn-helix domains; Region: HTH; cl00088 406425012874 Cupin domain; Region: Cupin_2; cl09118 406425012875 Epoxide hydrolase N terminus; Region: EHN; pfam06441 406425012876 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425012877 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425012878 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425012879 conserved cys residue [active] 406425012880 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 406425012881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012882 NAD(P) binding site [chemical binding]; other site 406425012883 active site 406425012884 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012885 putative substrate translocation pore; other site 406425012886 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425012887 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425012888 putative substrate translocation pore; other site 406425012889 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425012890 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425012891 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425012892 Helix-turn-helix domains; Region: HTH; cl00088 406425012893 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425012894 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 406425012895 Helix-turn-helix domains; Region: HTH; cl00088 406425012896 AsnC family; Region: AsnC_trans_reg; pfam01037 406425012897 LysE type translocator; Region: LysE; cl00565 406425012898 voltage-gated potassium channel; Provisional; Region: PRK10537 406425012899 Ion channel; Region: Ion_trans_2; cl11596 406425012900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425012901 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 406425012902 Cache domain; Region: Cache_1; pfam02743 406425012903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 406425012904 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425012905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425012906 dimer interface [polypeptide binding]; other site 406425012907 putative CheW interface [polypeptide binding]; other site 406425012908 acyl-CoA synthetase; Validated; Region: PRK08162 406425012909 AMP-binding enzyme; Region: AMP-binding; cl15778 406425012910 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425012911 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425012912 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425012913 ligand binding site [chemical binding]; other site 406425012914 flexible hinge region; other site 406425012915 Helix-turn-helix domains; Region: HTH; cl00088 406425012916 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425012917 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425012918 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425012919 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425012920 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425012921 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425012922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425012923 active site 406425012924 phosphorylation site [posttranslational modification] 406425012925 intermolecular recognition site; other site 406425012926 dimerization interface [polypeptide binding]; other site 406425012927 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425012928 DNA binding site [nucleotide binding] 406425012929 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425012930 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425012931 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425012932 dimer interface [polypeptide binding]; other site 406425012933 phosphorylation site [posttranslational modification] 406425012934 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425012935 ATP binding site [chemical binding]; other site 406425012936 Mg2+ binding site [ion binding]; other site 406425012937 G-X-G motif; other site 406425012938 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 406425012939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012940 Amidase; Region: Amidase; cl11426 406425012941 amidase; Provisional; Region: PRK07487 406425012942 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 406425012943 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 406425012944 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 406425012945 Ribosomally synthesized peptide prototyped by Frankia Franean1_4349; Region: Frankia_peptide; pfam14407 406425012946 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 406425012947 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 406425012948 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 406425012949 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 406425012950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425012951 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 406425012952 LysE type translocator; Region: LysE; cl00565 406425012953 Cupin domain; Region: Cupin_2; cl09118 406425012954 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425012955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425012957 Inclusion body protein; Region: PixA; pfam12306 406425012958 Inclusion body protein; Region: PixA; pfam12306 406425012959 Inclusion body protein; Region: PixA; pfam12306 406425012960 short chain dehydrogenase; Provisional; Region: PRK06523 406425012961 classical (c) SDRs; Region: SDR_c; cd05233 406425012962 NAD(P) binding site [chemical binding]; other site 406425012963 active site 406425012964 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 406425012965 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 406425012966 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 406425012967 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 406425012968 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 406425012969 active site 406425012970 FMN binding site [chemical binding]; other site 406425012971 substrate binding site [chemical binding]; other site 406425012972 homotetramer interface [polypeptide binding]; other site 406425012973 catalytic residue [active] 406425012974 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 406425012975 potential catalytic triad [active] 406425012976 conserved cys residue [active] 406425012977 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425012978 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425012979 DNA binding site [nucleotide binding] 406425012980 domain linker motif; other site 406425012981 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 406425012982 ligand binding site [chemical binding]; other site 406425012983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 406425012984 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 406425012985 active site 406425012986 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 406425012987 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 406425012988 substrate binding [chemical binding]; other site 406425012989 active site 406425012990 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 406425012991 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425012992 classical (c) SDRs; Region: SDR_c; cd05233 406425012993 NAD(P) binding site [chemical binding]; other site 406425012994 active site 406425012995 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 406425012996 Helix-turn-helix domains; Region: HTH; cl00088 406425012997 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425012998 dimerization interface [polypeptide binding]; other site 406425012999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425013000 DNA-binding site [nucleotide binding]; DNA binding site 406425013001 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425013002 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425013003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013004 homodimer interface [polypeptide binding]; other site 406425013005 catalytic residue [active] 406425013006 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425013007 Cupin domain; Region: Cupin_2; cl09118 406425013008 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013009 trimer interface [polypeptide binding]; other site 406425013010 eyelet of channel; other site 406425013011 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 406425013012 active site lid residues [active] 406425013013 substrate binding pocket [chemical binding]; other site 406425013014 catalytic residues [active] 406425013015 substrate-Mg2+ binding site; other site 406425013016 aspartate-rich region 1; other site 406425013017 aspartate-rich region 2; other site 406425013018 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 406425013019 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 406425013020 putative active site [active] 406425013021 catalytic site [active] 406425013022 putative metal binding site [ion binding]; other site 406425013023 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 406425013024 active site residue [active] 406425013025 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 406425013026 active site residue [active] 406425013027 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 406425013028 active site residue [active] 406425013029 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 406425013030 active site residue [active] 406425013031 Cysteine dioxygenase type I; Region: CDO_I; cl15835 406425013032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013033 Helix-turn-helix domains; Region: HTH; cl00088 406425013034 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425013035 dimerization interface [polypeptide binding]; other site 406425013036 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425013037 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425013038 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425013039 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 406425013040 dimer interface [polypeptide binding]; other site 406425013041 active site 406425013042 non-prolyl cis peptide bond; other site 406425013043 insertion regions; other site 406425013044 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 406425013045 active site 406425013046 intersubunit interface [polypeptide binding]; other site 406425013047 Zn2+ binding site [ion binding]; other site 406425013048 NMT1-like family; Region: NMT1_2; cl15260 406425013049 NMT1/THI5 like; Region: NMT1; pfam09084 406425013050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013051 dimer interface [polypeptide binding]; other site 406425013052 conserved gate region; other site 406425013053 putative PBP binding loops; other site 406425013054 ABC-ATPase subunit interface; other site 406425013055 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425013056 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425013057 Walker A/P-loop; other site 406425013058 ATP binding site [chemical binding]; other site 406425013059 Q-loop/lid; other site 406425013060 ABC transporter signature motif; other site 406425013061 Walker B; other site 406425013062 D-loop; other site 406425013063 H-loop/switch region; other site 406425013064 Cytochrome c; Region: Cytochrom_C; cl11414 406425013065 NMT1-like family; Region: NMT1_2; cl15260 406425013066 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 406425013067 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 406425013068 MOSC domain; Region: MOSC; pfam03473 406425013069 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425013070 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425013071 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425013072 dimer interface [polypeptide binding]; other site 406425013073 phosphorylation site [posttranslational modification] 406425013074 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425013075 ATP binding site [chemical binding]; other site 406425013076 Mg2+ binding site [ion binding]; other site 406425013077 G-X-G motif; other site 406425013078 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 406425013079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013080 active site 406425013081 phosphorylation site [posttranslational modification] 406425013082 intermolecular recognition site; other site 406425013083 dimerization interface [polypeptide binding]; other site 406425013084 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425013085 DNA binding site [nucleotide binding] 406425013086 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 406425013087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013088 putative substrate translocation pore; other site 406425013089 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425013090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425013091 DNA-binding site [nucleotide binding]; DNA binding site 406425013092 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425013093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013094 homodimer interface [polypeptide binding]; other site 406425013095 catalytic residue [active] 406425013096 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013097 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425013098 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 406425013099 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013100 dimer interface [polypeptide binding]; other site 406425013101 conserved gate region; other site 406425013102 ABC-ATPase subunit interface; other site 406425013103 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013104 dimer interface [polypeptide binding]; other site 406425013105 conserved gate region; other site 406425013106 putative PBP binding loops; other site 406425013107 ABC-ATPase subunit interface; other site 406425013108 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425013109 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 406425013110 Walker A/P-loop; other site 406425013111 ATP binding site [chemical binding]; other site 406425013112 Q-loop/lid; other site 406425013113 ABC transporter signature motif; other site 406425013114 Walker B; other site 406425013115 D-loop; other site 406425013116 H-loop/switch region; other site 406425013117 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013118 trimer interface [polypeptide binding]; other site 406425013119 eyelet of channel; other site 406425013120 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425013121 NAD(P) binding site [chemical binding]; other site 406425013122 Cupin domain; Region: Cupin_2; cl09118 406425013123 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425013124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013125 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 406425013126 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425013127 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425013128 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 406425013129 putative substrate binding pocket [chemical binding]; other site 406425013130 trimer interface [polypeptide binding]; other site 406425013131 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 406425013132 putative active site [active] 406425013133 putative metal binding site [ion binding]; other site 406425013134 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425013135 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 406425013136 NAD binding site [chemical binding]; other site 406425013137 catalytic residues [active] 406425013138 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 406425013139 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425013140 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425013141 Helix-turn-helix domains; Region: HTH; cl00088 406425013142 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425013143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013144 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 406425013145 NAD(P) binding site [chemical binding]; other site 406425013146 active site 406425013147 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 406425013148 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 406425013149 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 406425013150 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425013151 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425013152 putative cation:proton antiport protein; Provisional; Region: PRK10669 406425013153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013154 Cytochrome c; Region: Cytochrom_C; cl11414 406425013155 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425013156 Cytochrome c; Region: Cytochrom_C; cl11414 406425013157 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425013158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013159 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425013160 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 406425013161 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 406425013162 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 406425013163 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 406425013164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013165 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 406425013166 hypothetical protein; Provisional; Region: PRK08609 406425013167 active site 406425013168 primer binding site [nucleotide binding]; other site 406425013169 NTP binding site [chemical binding]; other site 406425013170 metal binding triad [ion binding]; metal-binding site 406425013171 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 406425013172 CoA-binding domain; Region: CoA_binding_3; pfam13727 406425013173 Bacterial sugar transferase; Region: Bac_transf; cl00939 406425013174 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425013175 Helix-turn-helix domains; Region: HTH; cl00088 406425013176 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425013177 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425013178 ligand binding site [chemical binding]; other site 406425013179 flexible hinge region; other site 406425013180 Helix-turn-helix domains; Region: HTH; cl00088 406425013181 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425013182 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425013183 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425013184 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425013185 active site 406425013186 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 406425013187 dimer interface [polypeptide binding]; other site 406425013188 motif 1; other site 406425013189 active site 406425013190 motif 2; other site 406425013191 motif 3; other site 406425013192 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 406425013193 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 406425013194 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425013195 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425013196 Walker A motif; other site 406425013197 ATP binding site [chemical binding]; other site 406425013198 Walker B motif; other site 406425013199 arginine finger; other site 406425013200 Helix-turn-helix domains; Region: HTH; cl00088 406425013201 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425013202 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425013203 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425013204 Substrate binding site; other site 406425013205 Cupin domain; Region: Cupin_2; cl09118 406425013206 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 406425013207 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425013208 putative ADP-binding pocket [chemical binding]; other site 406425013209 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 406425013210 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 406425013211 Chain length determinant protein; Region: Wzz; cl15801 406425013212 tyrosine kinase; Provisional; Region: PRK11519 406425013213 Chain length determinant protein; Region: Wzz; cl15801 406425013214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425013215 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 406425013216 MatE; Region: MatE; cl10513 406425013217 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425013218 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 406425013219 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425013220 polysaccharide export protein Wza; Provisional; Region: PRK15078 406425013221 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425013222 SLBB domain; Region: SLBB; pfam10531 406425013223 Probable beta-xylosidase; Provisional; Region: PLN03080 406425013224 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 406425013225 Fibronectin type III-like domain; Region: Fn3-like; cl15273 406425013226 Helix-turn-helix domains; Region: HTH; cl00088 406425013227 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013228 dimerization interface [polypeptide binding]; other site 406425013229 Uncharacterized conserved protein [Function unknown]; Region: COG1739 406425013230 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 406425013231 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 406425013232 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 406425013233 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425013234 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 406425013235 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425013236 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425013237 putative acyl-acceptor binding pocket; other site 406425013238 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 406425013239 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39C; cd02419 406425013240 putative active site [active] 406425013241 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425013242 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 406425013243 Walker A/P-loop; other site 406425013244 ATP binding site [chemical binding]; other site 406425013245 Q-loop/lid; other site 406425013246 ABC transporter signature motif; other site 406425013247 Walker B; other site 406425013248 D-loop; other site 406425013249 H-loop/switch region; other site 406425013250 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 406425013251 Helix-turn-helix domains; Region: HTH; cl00088 406425013252 haloalkane dehalogenase; Provisional; Region: PRK00870 406425013253 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 406425013254 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425013255 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 406425013256 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 406425013257 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 406425013258 ATP binding site [chemical binding]; other site 406425013259 putative Mg++ binding site [ion binding]; other site 406425013260 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425013261 nucleotide binding region [chemical binding]; other site 406425013262 ATP-binding site [chemical binding]; other site 406425013263 DEAD/H associated; Region: DEAD_assoc; pfam08494 406425013264 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 406425013265 putative transporter; Provisional; Region: PRK11021 406425013266 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425013267 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 406425013268 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425013269 Helix-turn-helix domains; Region: HTH; cl00088 406425013270 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013271 dimerization interface [polypeptide binding]; other site 406425013272 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425013273 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 406425013274 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 406425013275 heterodimer interface [polypeptide binding]; other site 406425013276 multimer interface [polypeptide binding]; other site 406425013277 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 406425013278 active site 406425013279 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 406425013280 active site 406425013281 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425013282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425013283 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 406425013284 SxDxEG motif; other site 406425013285 active site 406425013286 metal binding site [ion binding]; metal-binding site 406425013287 homopentamer interface [polypeptide binding]; other site 406425013288 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 406425013289 homodimer interface [polypeptide binding]; other site 406425013290 homotetramer interface [polypeptide binding]; other site 406425013291 active site pocket [active] 406425013292 cleavage site 406425013293 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 406425013294 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425013295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013296 dimer interface [polypeptide binding]; other site 406425013297 conserved gate region; other site 406425013298 putative PBP binding loops; other site 406425013299 ABC-ATPase subunit interface; other site 406425013300 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 406425013301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013302 dimer interface [polypeptide binding]; other site 406425013303 conserved gate region; other site 406425013304 putative PBP binding loops; other site 406425013305 ABC-ATPase subunit interface; other site 406425013306 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 406425013307 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425013308 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 406425013309 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425013310 Walker A/P-loop; other site 406425013311 ATP binding site [chemical binding]; other site 406425013312 Q-loop/lid; other site 406425013313 ABC transporter signature motif; other site 406425013314 Walker B; other site 406425013315 D-loop; other site 406425013316 H-loop/switch region; other site 406425013317 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425013318 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425013319 Walker A/P-loop; other site 406425013320 ATP binding site [chemical binding]; other site 406425013321 Q-loop/lid; other site 406425013322 ABC transporter signature motif; other site 406425013323 Walker B; other site 406425013324 D-loop; other site 406425013325 H-loop/switch region; other site 406425013326 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425013327 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 406425013328 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 406425013329 catalytic nucleophile [active] 406425013330 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425013331 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425013332 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425013333 putative active site [active] 406425013334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013335 D-galactonate transporter; Region: 2A0114; TIGR00893 406425013336 putative substrate translocation pore; other site 406425013337 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 406425013338 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 406425013339 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 406425013340 putative active site [active] 406425013341 putative catalytic site [active] 406425013342 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013343 trimer interface [polypeptide binding]; other site 406425013344 eyelet of channel; other site 406425013345 BCCT family transporter; Region: BCCT; cl00569 406425013346 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 406425013347 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425013348 S-adenosylmethionine binding site [chemical binding]; other site 406425013349 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425013350 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425013351 active site 406425013352 metal binding site [ion binding]; metal-binding site 406425013353 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 406425013354 Predicted transporter component [General function prediction only]; Region: COG2391 406425013355 Sulphur transport; Region: Sulf_transp; cl01018 406425013356 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 406425013357 Predicted transporter component [General function prediction only]; Region: COG2391 406425013358 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425013359 dimerization interface [polypeptide binding]; other site 406425013360 putative DNA binding site [nucleotide binding]; other site 406425013361 putative Zn2+ binding site [ion binding]; other site 406425013362 benzoate transport; Region: 2A0115; TIGR00895 406425013363 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013364 putative substrate translocation pore; other site 406425013365 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013366 salicylate hydroxylase; Provisional; Region: PRK08163 406425013367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013368 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 406425013369 maleylacetoacetate isomerase; Region: maiA; TIGR01262 406425013370 C-terminal domain interface [polypeptide binding]; other site 406425013371 GSH binding site (G-site) [chemical binding]; other site 406425013372 putative dimer interface [polypeptide binding]; other site 406425013373 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 406425013374 dimer interface [polypeptide binding]; other site 406425013375 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 406425013376 N-terminal domain interface [polypeptide binding]; other site 406425013377 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425013378 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 406425013379 Cupin domain; Region: Cupin_2; cl09118 406425013380 Helix-turn-helix domains; Region: HTH; cl00088 406425013381 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425013382 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013383 dimerization interface [polypeptide binding]; other site 406425013384 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 406425013385 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425013386 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425013387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013388 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 406425013389 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 406425013390 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425013391 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425013392 inhibitor site; inhibition site 406425013393 active site 406425013394 dimer interface [polypeptide binding]; other site 406425013395 catalytic residue [active] 406425013396 amino acid transporter; Region: 2A0306; TIGR00909 406425013397 Spore germination protein; Region: Spore_permease; cl15802 406425013398 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425013399 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 406425013400 dimer interface [polypeptide binding]; other site 406425013401 NADP binding site [chemical binding]; other site 406425013402 catalytic residues [active] 406425013403 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 406425013404 Dehydratase family; Region: ILVD_EDD; cl00340 406425013405 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 406425013406 Bacterial SH3 domain; Region: SH3_3; cl02551 406425013407 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 406425013408 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425013409 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 406425013410 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425013411 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425013412 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425013413 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 406425013414 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 406425013415 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 406425013416 DNA binding residues [nucleotide binding] 406425013417 putative dimer interface [polypeptide binding]; other site 406425013418 putative metal binding residues [ion binding]; other site 406425013419 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 406425013420 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425013421 Helix-turn-helix domains; Region: HTH; cl00088 406425013422 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425013423 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013424 putative substrate translocation pore; other site 406425013425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013426 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 406425013427 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 406425013428 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425013429 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 406425013430 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425013431 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 406425013432 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 406425013433 active site 406425013434 metal-binding site 406425013435 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 406425013436 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425013437 tetramer interface [polypeptide binding]; other site 406425013438 active site 406425013439 Mg2+/Mn2+ binding site [ion binding]; other site 406425013440 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 406425013441 active site 406425013442 metal-binding site 406425013443 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425013444 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 406425013445 PYR/PP interface [polypeptide binding]; other site 406425013446 dimer interface [polypeptide binding]; other site 406425013447 TPP binding site [chemical binding]; other site 406425013448 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 406425013449 TPP-binding site; other site 406425013450 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 406425013451 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425013452 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425013453 catalytic residue [active] 406425013454 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 406425013455 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425013456 dimerization interface [polypeptide binding]; other site 406425013457 ligand binding site [chemical binding]; other site 406425013458 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 406425013459 active site 406425013460 homodimer interface [polypeptide binding]; other site 406425013461 threonine synthase; Validated; Region: PRK08197 406425013462 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 406425013463 homodimer interface [polypeptide binding]; other site 406425013464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013465 catalytic residue [active] 406425013466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 406425013467 YheO-like PAS domain; Region: PAS_6; pfam08348 406425013468 Helix-turn-helix domains; Region: HTH; cl00088 406425013469 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425013470 Helix-turn-helix domains; Region: HTH; cl00088 406425013471 Integrase core domain; Region: rve; cl01316 406425013472 OpgC protein; Region: OpgC_C; cl00792 406425013473 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 406425013474 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425013475 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 406425013476 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 406425013477 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 406425013478 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 406425013479 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 406425013480 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 406425013481 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 406425013482 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 406425013483 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 406425013484 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 406425013485 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 406425013486 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 406425013487 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 406425013488 Uncharacterized conserved protein [Function unknown]; Region: COG2308 406425013489 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 406425013490 cell density-dependent motility repressor; Provisional; Region: PRK10082 406425013491 Helix-turn-helix domains; Region: HTH; cl00088 406425013492 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425013493 dimerization interface [polypeptide binding]; other site 406425013494 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 406425013495 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 406425013496 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 406425013497 putative active site [active] 406425013498 putative metal binding site [ion binding]; other site 406425013499 N-glycosyltransferase; Provisional; Region: PRK11204 406425013500 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 406425013501 DXD motif; other site 406425013502 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425013503 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425013504 glutaminase active site [active] 406425013505 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425013506 dimer interface [polypeptide binding]; other site 406425013507 active site 406425013508 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425013509 dimer interface [polypeptide binding]; other site 406425013510 active site 406425013511 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 406425013512 Cytochrome c; Region: Cytochrom_C; cl11414 406425013513 allantoate amidohydrolase; Reviewed; Region: PRK12891 406425013514 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425013515 active site 406425013516 metal binding site [ion binding]; metal-binding site 406425013517 dimer interface [polypeptide binding]; other site 406425013518 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 406425013519 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425013520 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425013521 dimerization interface [polypeptide binding]; other site 406425013522 ligand binding site [chemical binding]; other site 406425013523 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425013524 Helix-turn-helix domains; Region: HTH; cl00088 406425013525 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425013526 dimerization interface [polypeptide binding]; other site 406425013527 substrate binding pocket [chemical binding]; other site 406425013528 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425013529 oligomeric interface; other site 406425013530 putative active site [active] 406425013531 homodimer interface [polypeptide binding]; other site 406425013532 peroxiredoxin; Region: AhpC; TIGR03137 406425013533 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 406425013534 dimer interface [polypeptide binding]; other site 406425013535 decamer (pentamer of dimers) interface [polypeptide binding]; other site 406425013536 catalytic triad [active] 406425013537 peroxidatic and resolving cysteines [active] 406425013538 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 406425013539 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 406425013540 catalytic residue [active] 406425013541 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 406425013542 catalytic residues [active] 406425013543 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425013544 Cupin domain; Region: Cupin_2; cl09118 406425013545 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425013546 hypothetical protein; Provisional; Region: PRK07483 406425013547 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425013548 inhibitor-cofactor binding pocket; inhibition site 406425013549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013550 catalytic residue [active] 406425013551 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 406425013552 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 406425013553 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425013554 Walker A/P-loop; other site 406425013555 ATP binding site [chemical binding]; other site 406425013556 Q-loop/lid; other site 406425013557 ABC transporter signature motif; other site 406425013558 Walker B; other site 406425013559 D-loop; other site 406425013560 H-loop/switch region; other site 406425013561 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425013562 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013563 dimer interface [polypeptide binding]; other site 406425013564 conserved gate region; other site 406425013565 putative PBP binding loops; other site 406425013566 ABC-ATPase subunit interface; other site 406425013567 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425013568 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425013569 substrate binding pocket [chemical binding]; other site 406425013570 membrane-bound complex binding site; other site 406425013571 hinge residues; other site 406425013572 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 406425013573 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425013574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425013575 Walker A/P-loop; other site 406425013576 ATP binding site [chemical binding]; other site 406425013577 Q-loop/lid; other site 406425013578 ABC transporter signature motif; other site 406425013579 Walker B; other site 406425013580 D-loop; other site 406425013581 H-loop/switch region; other site 406425013582 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425013583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425013584 Walker A/P-loop; other site 406425013585 ATP binding site [chemical binding]; other site 406425013586 Q-loop/lid; other site 406425013587 ABC transporter signature motif; other site 406425013588 Walker B; other site 406425013589 D-loop; other site 406425013590 H-loop/switch region; other site 406425013591 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425013592 Helix-turn-helix domains; Region: HTH; cl00088 406425013593 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013594 dimerization interface [polypeptide binding]; other site 406425013595 MAPEG family; Region: MAPEG; cl09190 406425013596 alanine racemase; Reviewed; Region: PRK13340 406425013597 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 406425013598 active site 406425013599 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425013600 substrate binding site [chemical binding]; other site 406425013601 catalytic residues [active] 406425013602 dimer interface [polypeptide binding]; other site 406425013603 enoyl-CoA hydratase; Validated; Region: PRK08139 406425013604 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425013605 substrate binding site [chemical binding]; other site 406425013606 oxyanion hole (OAH) forming residues; other site 406425013607 trimer interface [polypeptide binding]; other site 406425013608 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425013609 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013610 putative substrate translocation pore; other site 406425013611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013612 Helix-turn-helix domains; Region: HTH; cl00088 406425013613 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013614 dimerization interface [polypeptide binding]; other site 406425013615 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 406425013616 Response regulator receiver domain; Region: Response_reg; pfam00072 406425013617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013618 active site 406425013619 phosphorylation site [posttranslational modification] 406425013620 intermolecular recognition site; other site 406425013621 dimerization interface [polypeptide binding]; other site 406425013622 Chemotaxis phosphatase CheX; Region: CheX; cl15816 406425013623 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425013624 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425013625 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425013626 dimerization interface [polypeptide binding]; other site 406425013627 PAS domain; Region: PAS_9; pfam13426 406425013628 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 406425013629 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 406425013630 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 406425013631 putative binding surface; other site 406425013632 active site 406425013633 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425013634 ATP binding site [chemical binding]; other site 406425013635 Mg2+ binding site [ion binding]; other site 406425013636 G-X-G motif; other site 406425013637 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425013638 L-asparagine permease; Provisional; Region: PRK15049 406425013639 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 406425013640 Aspartase; Region: Aspartase; cd01357 406425013641 active sites [active] 406425013642 tetramer interface [polypeptide binding]; other site 406425013643 Helix-turn-helix domains; Region: HTH; cl00088 406425013644 transcriptional activator TtdR; Provisional; Region: PRK09801 406425013645 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425013646 putative effector binding pocket; other site 406425013647 dimerization interface [polypeptide binding]; other site 406425013648 L-asparaginase II; Region: Asparaginase_II; cl01842 406425013649 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 406425013650 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 406425013651 Protein of unknown function (DUF979); Region: DUF979; cl01572 406425013652 Protein of unknown function (DUF969); Region: DUF969; cl01573 406425013653 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 406425013654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013655 active site 406425013656 phosphorylation site [posttranslational modification] 406425013657 intermolecular recognition site; other site 406425013658 dimerization interface [polypeptide binding]; other site 406425013659 CheB methylesterase; Region: CheB_methylest; pfam01339 406425013660 Response regulator receiver domain; Region: Response_reg; pfam00072 406425013661 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013662 active site 406425013663 phosphorylation site [posttranslational modification] 406425013664 intermolecular recognition site; other site 406425013665 dimerization interface [polypeptide binding]; other site 406425013666 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425013667 metal binding site [ion binding]; metal-binding site 406425013668 active site 406425013669 I-site; other site 406425013670 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 406425013671 GAF domain; Region: GAF; cl15785 406425013672 sensory histidine kinase AtoS; Provisional; Region: PRK11360 406425013673 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425013674 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425013675 metal binding site [ion binding]; metal-binding site 406425013676 active site 406425013677 I-site; other site 406425013678 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425013679 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425013680 Helix-turn-helix domains; Region: HTH; cl00088 406425013681 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 406425013682 putative effector binding pocket; other site 406425013683 putative dimerization interface [polypeptide binding]; other site 406425013684 Isochorismatase family; Region: Isochorismatase; pfam00857 406425013685 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 406425013686 catalytic triad [active] 406425013687 dimer interface [polypeptide binding]; other site 406425013688 conserved cis-peptide bond; other site 406425013689 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 406425013690 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425013691 motif II; other site 406425013692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013693 Helix-turn-helix domains; Region: HTH; cl00088 406425013694 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013695 dimerization interface [polypeptide binding]; other site 406425013696 shikimate transporter; Provisional; Region: PRK09952 406425013697 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013698 putative substrate translocation pore; other site 406425013699 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425013700 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425013701 tetrameric interface [polypeptide binding]; other site 406425013702 NAD binding site [chemical binding]; other site 406425013703 catalytic residues [active] 406425013704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013705 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 406425013706 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425013707 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425013708 Cytochrome c; Region: Cytochrom_C; cl11414 406425013709 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425013710 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 406425013711 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425013712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013713 salicylate hydroxylase; Provisional; Region: PRK06475 406425013714 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425013715 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425013716 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425013717 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 406425013718 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 406425013719 Isochorismatase family; Region: Isochorismatase; pfam00857 406425013720 catalytic triad [active] 406425013721 conserved cis-peptide bond; other site 406425013722 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425013723 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425013724 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425013725 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425013726 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425013727 Helix-turn-helix domains; Region: HTH; cl00088 406425013728 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425013729 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425013730 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013731 putative substrate translocation pore; other site 406425013732 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 406425013733 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 406425013734 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 406425013735 Na binding site [ion binding]; other site 406425013736 putative substrate binding site [chemical binding]; other site 406425013737 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 406425013738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013739 Helix-turn-helix domains; Region: HTH; cl00088 406425013740 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425013741 dimerization interface [polypeptide binding]; other site 406425013742 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 406425013743 NMT1-like family; Region: NMT1_2; cl15260 406425013744 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 406425013745 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 406425013746 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 406425013747 Ligand binding site; other site 406425013748 Putative Catalytic site; other site 406425013749 DXD motif; other site 406425013750 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 406425013751 NMT1-like family; Region: NMT1_2; cl15260 406425013752 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425013753 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425013754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425013755 dimer interface [polypeptide binding]; other site 406425013756 putative PBP binding loops; other site 406425013757 ABC-ATPase subunit interface; other site 406425013758 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425013759 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425013760 Walker A/P-loop; other site 406425013761 ATP binding site [chemical binding]; other site 406425013762 Q-loop/lid; other site 406425013763 ABC transporter signature motif; other site 406425013764 Walker B; other site 406425013765 D-loop; other site 406425013766 H-loop/switch region; other site 406425013767 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425013768 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425013769 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 406425013770 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 406425013771 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 406425013772 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425013773 peptide binding site [polypeptide binding]; other site 406425013774 Domain of unknown function (DUF427); Region: DUF427; cl00998 406425013775 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425013776 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425013777 substrate binding pocket [chemical binding]; other site 406425013778 membrane-bound complex binding site; other site 406425013779 hinge residues; other site 406425013780 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 406425013781 transcriptional regulator; Provisional; Region: PRK10632 406425013782 Helix-turn-helix domains; Region: HTH; cl00088 406425013783 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425013784 putative effector binding pocket; other site 406425013785 dimerization interface [polypeptide binding]; other site 406425013786 putrescine transporter; Provisional; Region: potE; PRK10655 406425013787 arginine decarboxylase; Provisional; Region: PRK15029 406425013788 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425013789 active site 406425013790 phosphorylation site [posttranslational modification] 406425013791 intermolecular recognition site; other site 406425013792 dimerization interface [polypeptide binding]; other site 406425013793 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425013794 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425013795 catalytic residue [active] 406425013796 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 406425013797 ornithine decarboxylase; Provisional; Region: PRK13578 406425013798 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 406425013799 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 406425013800 homodimer interface [polypeptide binding]; other site 406425013801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013802 catalytic residue [active] 406425013803 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 406425013804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013805 putative substrate translocation pore; other site 406425013806 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 406425013807 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425013808 putative active site [active] 406425013809 metal binding site [ion binding]; metal-binding site 406425013810 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 406425013811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013812 NAD(P) binding site [chemical binding]; other site 406425013813 active site 406425013814 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425013815 Helix-turn-helix domains; Region: HTH; cl00088 406425013816 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 406425013817 putative substrate binding pocket [chemical binding]; other site 406425013818 putative dimerization interface [polypeptide binding]; other site 406425013819 xanthine permease; Region: pbuX; TIGR03173 406425013820 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425013821 nudix motif; other site 406425013822 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 406425013823 short chain dehydrogenase; Provisional; Region: PRK06523 406425013824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013825 NAD(P) binding site [chemical binding]; other site 406425013826 active site 406425013827 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425013828 Helix-turn-helix domains; Region: HTH; cl00088 406425013829 amino acid transporter; Region: 2A0306; TIGR00909 406425013830 Spore germination protein; Region: Spore_permease; cl15802 406425013831 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425013832 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 406425013833 putative active site [active] 406425013834 catalytic triad [active] 406425013835 putative dimer interface [polypeptide binding]; other site 406425013836 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425013837 DNA binding residues [nucleotide binding] 406425013838 dimerization interface [polypeptide binding]; other site 406425013839 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425013840 DNA binding site [nucleotide binding] 406425013841 domain linker motif; other site 406425013842 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 406425013843 Cupin domain; Region: Cupin_2; cl09118 406425013844 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425013845 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425013846 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425013847 Helix-turn-helix domains; Region: HTH; cl00088 406425013848 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 406425013849 putative dimerization interface [polypeptide binding]; other site 406425013850 putative substrate binding pocket [chemical binding]; other site 406425013851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425013852 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425013853 putative substrate translocation pore; other site 406425013854 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425013855 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425013856 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 406425013857 NADP binding site [chemical binding]; other site 406425013858 putative substrate binding site [chemical binding]; other site 406425013859 active site 406425013860 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 406425013861 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 406425013862 G1 box; other site 406425013863 putative GEF interaction site [polypeptide binding]; other site 406425013864 GTP/Mg2+ binding site [chemical binding]; other site 406425013865 Switch I region; other site 406425013866 G2 box; other site 406425013867 G3 box; other site 406425013868 Switch II region; other site 406425013869 G4 box; other site 406425013870 G5 box; other site 406425013871 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 406425013872 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 406425013873 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 406425013874 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 406425013875 selenocysteine synthase; Provisional; Region: PRK04311 406425013876 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 406425013877 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425013878 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425013879 catalytic residue [active] 406425013880 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 406425013881 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 406425013882 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 406425013883 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 406425013884 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 406425013885 4Fe-4S binding domain; Region: Fer4; cl02805 406425013886 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 406425013887 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 406425013888 molybdopterin cofactor binding site; other site 406425013889 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 406425013890 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 406425013891 molybdopterin cofactor binding site; other site 406425013892 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 406425013893 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 406425013894 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425013895 trimer interface [polypeptide binding]; other site 406425013896 eyelet of channel; other site 406425013897 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 406425013898 dimer interface [polypeptide binding]; other site 406425013899 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425013900 Walker A/P-loop; other site 406425013901 ATP binding site [chemical binding]; other site 406425013902 aminoglycoside resistance protein; Provisional; Region: PRK13746 406425013903 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 406425013904 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 406425013905 OpgC protein; Region: OpgC_C; cl00792 406425013906 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 406425013907 active site 406425013908 tetramer interface; other site 406425013909 OpgC protein; Region: OpgC_C; cl00792 406425013910 Acyltransferase family; Region: Acyl_transf_3; pfam01757 406425013911 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 406425013912 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425013913 putative ADP-binding pocket [chemical binding]; other site 406425013914 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425013915 MatE; Region: MatE; cl10513 406425013916 OpgC protein; Region: OpgC_C; cl00792 406425013917 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 406425013918 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 406425013919 NADP-binding site; other site 406425013920 homotetramer interface [polypeptide binding]; other site 406425013921 substrate binding site [chemical binding]; other site 406425013922 homodimer interface [polypeptide binding]; other site 406425013923 active site 406425013924 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425013925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013926 NAD(P) binding site [chemical binding]; other site 406425013927 active site 406425013928 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425013929 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425013930 putative active site [active] 406425013931 putative NTP binding site [chemical binding]; other site 406425013932 putative nucleic acid binding site [nucleotide binding]; other site 406425013933 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425013934 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 406425013935 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 406425013936 homodimer interface [polypeptide binding]; other site 406425013937 substrate-cofactor binding pocket; other site 406425013938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013939 catalytic residue [active] 406425013940 amidophosphoribosyltransferase; Provisional; Region: PRK09246 406425013941 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 406425013942 active site 406425013943 tetramer interface [polypeptide binding]; other site 406425013944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 406425013945 active site 406425013946 Colicin V production protein; Region: Colicin_V; cl00567 406425013947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 406425013948 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 406425013949 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 406425013950 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 406425013951 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 406425013952 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 406425013953 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 406425013954 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 406425013955 substrate binding site [chemical binding]; other site 406425013956 active site 406425013957 catalytic residues [active] 406425013958 heterodimer interface [polypeptide binding]; other site 406425013959 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425013960 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 406425013961 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 406425013962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425013963 catalytic residue [active] 406425013964 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 406425013965 active site 406425013966 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 406425013967 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 406425013968 dimerization interface 3.5A [polypeptide binding]; other site 406425013969 active site 406425013970 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 406425013971 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 406425013972 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 406425013973 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425013974 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 406425013975 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425013976 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 406425013977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425013978 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 406425013979 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 406425013980 tartrate dehydrogenase; Provisional; Region: PRK08194 406425013981 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 406425013982 substrate binding site [chemical binding]; other site 406425013983 Entericidin EcnA/B family; Region: Entericidin; cl02322 406425013984 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 406425013985 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 406425013986 substrate binding site [chemical binding]; other site 406425013987 ligand binding site [chemical binding]; other site 406425013988 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425013989 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425013990 Helix-turn-helix domains; Region: HTH; cl00088 406425013991 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 406425013992 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 406425013993 glutathione s-transferase; Provisional; Region: PTZ00057 406425013994 GSH binding site (G-site) [chemical binding]; other site 406425013995 C-terminal domain interface [polypeptide binding]; other site 406425013996 dimer interface [polypeptide binding]; other site 406425013997 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 406425013998 dimer interface [polypeptide binding]; other site 406425013999 N-terminal domain interface [polypeptide binding]; other site 406425014000 substrate binding pocket (H-site) [chemical binding]; other site 406425014001 lysine transporter; Provisional; Region: PRK10836 406425014002 Helix-turn-helix domains; Region: HTH; cl00088 406425014003 AsnC family; Region: AsnC_trans_reg; pfam01037 406425014004 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 406425014005 Amidinotransferase; Region: Amidinotransf; cl12043 406425014006 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 406425014007 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 406425014008 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425014009 Cupin domain; Region: Cupin_2; cl09118 406425014010 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425014011 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014012 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 406425014013 dimer interface [polypeptide binding]; other site 406425014014 Citrate synthase; Region: Citrate_synt; pfam00285 406425014015 active site 406425014016 citrylCoA binding site [chemical binding]; other site 406425014017 NADH binding [chemical binding]; other site 406425014018 cationic pore residues; other site 406425014019 oxalacetate/citrate binding site [chemical binding]; other site 406425014020 coenzyme A binding site [chemical binding]; other site 406425014021 catalytic triad [active] 406425014022 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425014023 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 406425014024 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 406425014025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014026 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 406425014027 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 406425014028 SdhC subunit interface [polypeptide binding]; other site 406425014029 proximal heme binding site [chemical binding]; other site 406425014030 cardiolipin binding site; other site 406425014031 Iron-sulfur protein interface; other site 406425014032 proximal quinone binding site [chemical binding]; other site 406425014033 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 406425014034 Iron-sulfur protein interface; other site 406425014035 proximal quinone binding site [chemical binding]; other site 406425014036 SdhD (CybS) interface [polypeptide binding]; other site 406425014037 proximal heme binding site [chemical binding]; other site 406425014038 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 406425014039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425014040 DNA-binding site [nucleotide binding]; DNA binding site 406425014041 UTRA domain; Region: UTRA; cl01230 406425014042 malate dehydrogenase; Provisional; Region: PRK05442 406425014043 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 406425014044 NAD(P) binding site [chemical binding]; other site 406425014045 dimer interface [polypeptide binding]; other site 406425014046 malate binding site [chemical binding]; other site 406425014047 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 406425014048 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 406425014049 aconitate hydratase; Provisional; Region: acnA; PRK12881 406425014050 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 406425014051 substrate binding site [chemical binding]; other site 406425014052 ligand binding site [chemical binding]; other site 406425014053 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 406425014054 substrate binding site [chemical binding]; other site 406425014055 Protein of unknown function (DUF419); Region: DUF419; cl15265 406425014056 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 406425014057 putative hydrophobic ligand binding site [chemical binding]; other site 406425014058 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425014059 dimerization interface [polypeptide binding]; other site 406425014060 putative DNA binding site [nucleotide binding]; other site 406425014061 putative Zn2+ binding site [ion binding]; other site 406425014062 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 406425014063 peptidase domain interface [polypeptide binding]; other site 406425014064 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425014065 active site 406425014066 catalytic triad [active] 406425014067 calcium binding site [ion binding]; other site 406425014068 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425014069 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014072 dimer interface [polypeptide binding]; other site 406425014073 conserved gate region; other site 406425014074 putative PBP binding loops; other site 406425014075 ABC-ATPase subunit interface; other site 406425014076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014077 dimer interface [polypeptide binding]; other site 406425014078 conserved gate region; other site 406425014079 putative PBP binding loops; other site 406425014080 ABC-ATPase subunit interface; other site 406425014081 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 406425014082 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014083 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 406425014084 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 406425014085 Walker A/P-loop; other site 406425014086 ATP binding site [chemical binding]; other site 406425014087 Q-loop/lid; other site 406425014088 ABC transporter signature motif; other site 406425014089 Walker B; other site 406425014090 D-loop; other site 406425014091 H-loop/switch region; other site 406425014092 TOBE domain; Region: TOBE_2; cl01440 406425014093 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425014094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425014095 DNA-binding site [nucleotide binding]; DNA binding site 406425014096 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425014097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014098 homodimer interface [polypeptide binding]; other site 406425014099 catalytic residue [active] 406425014100 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 406425014101 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 406425014102 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425014103 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425014104 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425014105 N-terminal plug; other site 406425014106 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 406425014107 ligand-binding site [chemical binding]; other site 406425014108 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 406425014109 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 406425014110 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425014111 Peptidase family M23; Region: Peptidase_M23; pfam01551 406425014112 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 406425014113 E3 interaction surface; other site 406425014114 lipoyl attachment site [posttranslational modification]; other site 406425014115 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425014116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014117 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 406425014118 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 406425014119 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425014120 NAD-dependent deacetylase; Provisional; Region: PRK05333 406425014121 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 406425014122 NAD+ binding site [chemical binding]; other site 406425014123 substrate binding site [chemical binding]; other site 406425014124 Zn binding site [ion binding]; other site 406425014125 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 406425014126 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425014127 putative mechanosensitive channel protein; Provisional; Region: PRK11465 406425014128 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425014129 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 406425014130 Helix-turn-helix domains; Region: HTH; cl00088 406425014131 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 406425014132 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 406425014133 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014134 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014136 putative substrate translocation pore; other site 406425014137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014138 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425014139 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 406425014140 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 406425014141 tetramer interface [polypeptide binding]; other site 406425014142 heme binding pocket [chemical binding]; other site 406425014143 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 406425014144 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425014145 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 406425014146 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 406425014147 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014148 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014149 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425014150 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425014151 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425014152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014153 active site 406425014154 phosphorylation site [posttranslational modification] 406425014155 intermolecular recognition site; other site 406425014156 dimerization interface [polypeptide binding]; other site 406425014157 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425014158 DNA binding site [nucleotide binding] 406425014159 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 406425014160 peptidase domain interface [polypeptide binding]; other site 406425014161 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425014162 active site 406425014163 catalytic triad [active] 406425014164 calcium binding site [ion binding]; other site 406425014165 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 406425014166 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425014167 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425014168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425014169 DNA-binding site [nucleotide binding]; DNA binding site 406425014170 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425014171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014172 homodimer interface [polypeptide binding]; other site 406425014173 catalytic residue [active] 406425014174 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 406425014175 PLD-like domain; Region: PLDc_2; pfam13091 406425014176 putative active site [active] 406425014177 catalytic site [active] 406425014178 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 406425014179 PLD-like domain; Region: PLDc_2; pfam13091 406425014180 putative active site [active] 406425014181 catalytic site [active] 406425014182 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 406425014183 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 406425014184 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425014185 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 406425014186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425014187 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425014188 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425014189 DNA binding residues [nucleotide binding] 406425014190 DNA primase; Validated; Region: dnaG; PRK05667 406425014191 CHC2 zinc finger; Region: zf-CHC2; cl15369 406425014192 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 406425014193 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 406425014194 active site 406425014195 metal binding site [ion binding]; metal-binding site 406425014196 interdomain interaction site; other site 406425014197 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 406425014198 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 406425014199 GatB domain; Region: GatB_Yqey; cl11497 406425014200 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 406425014201 HI0933-like protein; Region: HI0933_like; pfam03486 406425014202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014203 UGMP family protein; Validated; Region: PRK09604 406425014204 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 406425014205 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 406425014206 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 406425014207 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 406425014208 TPP-binding site; other site 406425014209 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 406425014210 PYR/PP interface [polypeptide binding]; other site 406425014211 dimer interface [polypeptide binding]; other site 406425014212 TPP binding site [chemical binding]; other site 406425014213 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 406425014214 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 406425014215 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 406425014216 substrate binding pocket [chemical binding]; other site 406425014217 chain length determination region; other site 406425014218 substrate-Mg2+ binding site; other site 406425014219 catalytic residues [active] 406425014220 aspartate-rich region 1; other site 406425014221 active site lid residues [active] 406425014222 aspartate-rich region 2; other site 406425014223 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 406425014224 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425014225 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425014226 [2Fe-2S] cluster binding site [ion binding]; other site 406425014227 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 406425014228 alpha subunit interface [polypeptide binding]; other site 406425014229 active site 406425014230 substrate binding site [chemical binding]; other site 406425014231 Fe binding site [ion binding]; other site 406425014232 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425014233 active site residue [active] 406425014234 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 406425014235 active site residue [active] 406425014236 Dienelactone hydrolase family; Region: DLH; pfam01738 406425014237 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425014238 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 406425014239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425014240 DNA polymerase I; Provisional; Region: PRK05755 406425014241 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 406425014242 active site 406425014243 metal binding site 1 [ion binding]; metal-binding site 406425014244 putative 5' ssDNA interaction site; other site 406425014245 metal binding site 3; metal-binding site 406425014246 metal binding site 2 [ion binding]; metal-binding site 406425014247 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 406425014248 putative DNA binding site [nucleotide binding]; other site 406425014249 putative metal binding site [ion binding]; other site 406425014250 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 406425014251 active site 406425014252 catalytic site [active] 406425014253 substrate binding site [chemical binding]; other site 406425014254 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 406425014255 active site 406425014256 DNA binding site [nucleotide binding] 406425014257 catalytic site [active] 406425014258 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425014259 AMP nucleosidase; Provisional; Region: PRK08292 406425014260 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 406425014261 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 406425014262 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 406425014263 putative active site [active] 406425014264 putative substrate binding site [chemical binding]; other site 406425014265 ATP binding site [chemical binding]; other site 406425014266 Helix-turn-helix domains; Region: HTH; cl00088 406425014267 OsmC-like protein; Region: OsmC; cl00767 406425014268 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 406425014269 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 406425014270 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425014271 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 406425014272 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 406425014273 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014275 dimer interface [polypeptide binding]; other site 406425014276 conserved gate region; other site 406425014277 putative PBP binding loops; other site 406425014278 ABC-ATPase subunit interface; other site 406425014279 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 406425014280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425014281 Walker A/P-loop; other site 406425014282 ATP binding site [chemical binding]; other site 406425014283 Q-loop/lid; other site 406425014284 ABC transporter signature motif; other site 406425014285 Walker B; other site 406425014286 D-loop; other site 406425014287 H-loop/switch region; other site 406425014288 Helix-turn-helix domains; Region: HTH; cl00088 406425014289 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 406425014290 TOBE domain; Region: TOBE_2; cl01440 406425014291 TOBE domain; Region: TOBE_2; cl01440 406425014292 CHAD domain; Region: CHAD; cl10506 406425014293 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425014294 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425014295 Helix-turn-helix domains; Region: HTH; cl00088 406425014296 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014297 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425014298 dimer interface [polypeptide binding]; other site 406425014299 phosphorylation site [posttranslational modification] 406425014300 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 406425014301 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 406425014302 Domain of unknown function DUF21; Region: DUF21; pfam01595 406425014303 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 406425014304 Transporter associated domain; Region: CorC_HlyC; cl08393 406425014305 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 406425014306 active site 406425014307 thiamine phosphate binding site [chemical binding]; other site 406425014308 pyrophosphate binding site [ion binding]; other site 406425014309 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 406425014310 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 406425014311 active site 406425014312 catalytic site [active] 406425014313 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 406425014314 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425014315 S-adenosylmethionine binding site [chemical binding]; other site 406425014316 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425014317 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 406425014318 putative C-terminal domain interface [polypeptide binding]; other site 406425014319 putative GSH binding site (G-site) [chemical binding]; other site 406425014320 putative dimer interface [polypeptide binding]; other site 406425014321 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 406425014322 putative N-terminal domain interface [polypeptide binding]; other site 406425014323 putative dimer interface [polypeptide binding]; other site 406425014324 putative substrate binding pocket (H-site) [chemical binding]; other site 406425014325 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 406425014326 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425014327 active site 406425014328 metal binding site [ion binding]; metal-binding site 406425014329 RES domain; Region: RES; cl02411 406425014330 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 406425014331 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425014332 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425014333 substrate binding pocket [chemical binding]; other site 406425014334 membrane-bound complex binding site; other site 406425014335 hinge residues; other site 406425014336 GtrA-like protein; Region: GtrA; cl00971 406425014337 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425014338 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425014339 Walker A motif; other site 406425014340 ATP binding site [chemical binding]; other site 406425014341 Walker B motif; other site 406425014342 arginine finger; other site 406425014343 Helix-turn-helix domains; Region: HTH; cl00088 406425014344 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425014345 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425014346 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 406425014347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014348 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425014349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014350 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425014351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425014352 Coenzyme A binding pocket [chemical binding]; other site 406425014353 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014354 putative substrate translocation pore; other site 406425014355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014356 Helix-turn-helix domains; Region: HTH; cl00088 406425014357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014358 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425014359 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425014360 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425014361 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 406425014362 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425014363 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 406425014364 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425014365 active site 406425014366 tyrosine kinase; Provisional; Region: PRK11519 406425014367 Chain length determinant protein; Region: Wzz; cl15801 406425014368 Chain length determinant protein; Region: Wzz; cl15801 406425014369 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 406425014370 P loop; other site 406425014371 Nucleotide binding site [chemical binding]; other site 406425014372 DTAP/Switch II; other site 406425014373 Switch I; other site 406425014374 polysaccharide export protein Wza; Provisional; Region: PRK15078 406425014375 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425014376 SLBB domain; Region: SLBB; pfam10531 406425014377 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425014378 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425014379 active site 406425014380 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 406425014381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014382 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 406425014383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014384 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 406425014385 Bacterial sugar transferase; Region: Bac_transf; cl00939 406425014386 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 406425014387 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 406425014388 Substrate binding site; other site 406425014389 Cupin domain; Region: Cupin_2; cl09118 406425014390 DDE superfamily endonuclease; Region: DDE_4; cl15789 406425014391 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 406425014392 tricarballylate utilization protein B; Provisional; Region: PRK15033 406425014393 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 406425014394 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 406425014395 binuclear metal center [ion binding]; other site 406425014396 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 406425014397 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425014398 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425014399 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 406425014400 YCII-related domain; Region: YCII; cl00999 406425014401 YCII-related domain; Region: YCII; cl00999 406425014402 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 406425014403 generic binding surface I; other site 406425014404 generic binding surface II; other site 406425014405 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 406425014406 putative active site [active] 406425014407 putative catalytic site [active] 406425014408 putative Mg binding site IVb [ion binding]; other site 406425014409 putative DNA binding site [nucleotide binding]; other site 406425014410 putative phosphate binding site [ion binding]; other site 406425014411 putative Mg binding site IVa [ion binding]; other site 406425014412 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 406425014413 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 406425014414 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 406425014415 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 406425014416 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 406425014417 Prostaglandin dehydrogenases; Region: PGDH; cd05288 406425014418 NAD(P) binding site [chemical binding]; other site 406425014419 substrate binding site [chemical binding]; other site 406425014420 dimer interface [polypeptide binding]; other site 406425014421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014422 short chain dehydrogenase; Validated; Region: PRK07069 406425014423 NAD(P) binding site [chemical binding]; other site 406425014424 active site 406425014425 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 406425014426 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 406425014427 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425014428 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425014429 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 406425014430 Helix-turn-helix domains; Region: HTH; cl00088 406425014431 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 406425014432 substrate binding pocket [chemical binding]; other site 406425014433 dimerization interface [polypeptide binding]; other site 406425014434 OsmC-like protein; Region: OsmC; cl00767 406425014435 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 406425014436 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425014437 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425014438 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 406425014439 Walker A/P-loop; other site 406425014440 ATP binding site [chemical binding]; other site 406425014441 Q-loop/lid; other site 406425014442 ABC transporter signature motif; other site 406425014443 Walker B; other site 406425014444 D-loop; other site 406425014445 H-loop/switch region; other site 406425014446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425014447 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425014448 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 406425014449 Lumazine binding domain; Region: Lum_binding; pfam00677 406425014450 Lumazine binding domain; Region: Lum_binding; pfam00677 406425014451 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 406425014452 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 406425014453 putative Cl- selectivity filter; other site 406425014454 putative pore gating glutamate residue; other site 406425014455 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 406425014456 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014457 active site 406425014458 phosphorylation site [posttranslational modification] 406425014459 intermolecular recognition site; other site 406425014460 dimerization interface [polypeptide binding]; other site 406425014461 CheB methylesterase; Region: CheB_methylest; pfam01339 406425014462 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 406425014463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425014464 ATP binding site [chemical binding]; other site 406425014465 Mg2+ binding site [ion binding]; other site 406425014466 G-X-G motif; other site 406425014467 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 406425014468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014469 Response regulator receiver domain; Region: Response_reg; pfam00072 406425014470 active site 406425014471 phosphorylation site [posttranslational modification] 406425014472 intermolecular recognition site; other site 406425014473 dimerization interface [polypeptide binding]; other site 406425014474 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 406425014475 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 406425014476 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425014477 Tetratricopeptide repeat; Region: TPR_16; pfam13432 406425014478 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 406425014479 hypothetical protein; Provisional; Region: PRK06851 406425014480 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425014481 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 406425014482 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425014483 dimerization interface [polypeptide binding]; other site 406425014484 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425014485 dimer interface [polypeptide binding]; other site 406425014486 putative CheW interface [polypeptide binding]; other site 406425014487 Response regulator receiver domain; Region: Response_reg; pfam00072 406425014488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014489 active site 406425014490 phosphorylation site [posttranslational modification] 406425014491 intermolecular recognition site; other site 406425014492 dimerization interface [polypeptide binding]; other site 406425014493 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 406425014494 dimer interface [polypeptide binding]; other site 406425014495 phosphorylation site [posttranslational modification] 406425014496 sensor protein BasS/PmrB; Provisional; Region: PRK10755 406425014497 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425014498 Mg2+ binding site [ion binding]; other site 406425014499 G-X-G motif; other site 406425014500 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 406425014501 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 406425014502 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425014503 NAD(P) binding site [chemical binding]; other site 406425014504 catalytic residues [active] 406425014505 acetolactate synthase; Reviewed; Region: PRK08322 406425014506 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425014507 PYR/PP interface [polypeptide binding]; other site 406425014508 dimer interface [polypeptide binding]; other site 406425014509 TPP binding site [chemical binding]; other site 406425014510 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425014511 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 406425014512 TPP-binding site [chemical binding]; other site 406425014513 dimer interface [polypeptide binding]; other site 406425014514 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 406425014515 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425014516 Protein of unknown function (DUF445); Region: DUF445; pfam04286 406425014517 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 406425014518 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425014519 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 406425014520 [2Fe-2S] cluster binding site [ion binding]; other site 406425014521 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 406425014522 inter-subunit interface; other site 406425014523 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 406425014524 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 406425014525 putative alpha subunit interface [polypeptide binding]; other site 406425014526 putative active site [active] 406425014527 putative substrate binding site [chemical binding]; other site 406425014528 Fe binding site [ion binding]; other site 406425014529 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425014530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014531 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425014532 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 406425014533 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425014534 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425014535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425014536 dimer interface [polypeptide binding]; other site 406425014537 putative CheW interface [polypeptide binding]; other site 406425014538 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425014539 Helix-turn-helix domains; Region: HTH; cl00088 406425014540 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 406425014541 dimerizarion interface [polypeptide binding]; other site 406425014542 CrgA pocket; other site 406425014543 substrate binding pocket [chemical binding]; other site 406425014544 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 406425014545 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 406425014546 octamer interface [polypeptide binding]; other site 406425014547 active site 406425014548 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 406425014549 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 406425014550 dimer interface [polypeptide binding]; other site 406425014551 active site 406425014552 Muconolactone delta-isomerase; Region: MIase; cl01992 406425014553 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425014554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014555 Helix-turn-helix domains; Region: HTH; cl00088 406425014556 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 406425014557 putative substrate binding pocket [chemical binding]; other site 406425014558 putative dimerization interface [polypeptide binding]; other site 406425014559 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 406425014560 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 406425014561 active site 406425014562 FMN binding site [chemical binding]; other site 406425014563 2,4-decadienoyl-CoA binding site; other site 406425014564 catalytic residue [active] 406425014565 4Fe-4S cluster binding site [ion binding]; other site 406425014566 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 406425014567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014568 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425014569 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425014570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014571 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 406425014572 substrate binding site [chemical binding]; other site 406425014573 Protein of unknown function (DUF521); Region: DUF521; pfam04412 406425014574 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 406425014575 substrate binding site [chemical binding]; other site 406425014576 ligand binding site [chemical binding]; other site 406425014577 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425014578 Helix-turn-helix domains; Region: HTH; cl00088 406425014579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014580 Helix-turn-helix domains; Region: HTH; cl00088 406425014581 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425014582 putative effector binding pocket; other site 406425014583 dimerization interface [polypeptide binding]; other site 406425014584 Helix-turn-helix domains; Region: HTH; cl00088 406425014585 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 406425014586 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014587 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014588 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425014589 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014590 putative substrate translocation pore; other site 406425014591 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425014592 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425014593 MULE transposase domain; Region: MULE; pfam10551 406425014594 PAAR motif; Region: PAAR_motif; cl15808 406425014595 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425014596 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 406425014597 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425014598 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425014599 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425014600 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425014601 glutathione S-transferase; Provisional; Region: PRK15113 406425014602 NlpC/P60 family; Region: NLPC_P60; cl11438 406425014603 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425014604 Helix-turn-helix domains; Region: HTH; cl00088 406425014605 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425014606 dimerization interface [polypeptide binding]; other site 406425014607 substrate binding pocket [chemical binding]; other site 406425014608 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014609 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425014610 putative substrate translocation pore; other site 406425014611 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425014612 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 406425014613 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 406425014614 active site 406425014615 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425014616 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 406425014617 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425014618 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425014619 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425014620 dimer interface [polypeptide binding]; other site 406425014621 putative CheW interface [polypeptide binding]; other site 406425014622 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 406425014623 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 406425014624 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425014625 ligand binding site [chemical binding]; other site 406425014626 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425014627 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425014628 ligand binding site [chemical binding]; other site 406425014629 flexible hinge region; other site 406425014630 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 406425014631 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425014632 putative C-terminal domain interface [polypeptide binding]; other site 406425014633 putative GSH binding site (G-site) [chemical binding]; other site 406425014634 putative dimer interface [polypeptide binding]; other site 406425014635 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 406425014636 putative N-terminal domain interface [polypeptide binding]; other site 406425014637 putative dimer interface [polypeptide binding]; other site 406425014638 putative substrate binding pocket (H-site) [chemical binding]; other site 406425014639 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 406425014640 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 406425014641 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 406425014642 Cupin domain; Region: Cupin_2; cl09118 406425014643 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 406425014644 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425014645 Walker A/P-loop; other site 406425014646 ATP binding site [chemical binding]; other site 406425014647 Q-loop/lid; other site 406425014648 ABC transporter signature motif; other site 406425014649 Walker B; other site 406425014650 D-loop; other site 406425014651 H-loop/switch region; other site 406425014652 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425014653 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014654 dimer interface [polypeptide binding]; other site 406425014655 conserved gate region; other site 406425014656 putative PBP binding loops; other site 406425014657 ABC-ATPase subunit interface; other site 406425014658 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425014659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425014660 dimer interface [polypeptide binding]; other site 406425014661 conserved gate region; other site 406425014662 putative PBP binding loops; other site 406425014663 ABC-ATPase subunit interface; other site 406425014664 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425014665 trimer interface [polypeptide binding]; other site 406425014666 eyelet of channel; other site 406425014667 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425014668 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425014669 DNA-binding site [nucleotide binding]; DNA binding site 406425014670 UTRA domain; Region: UTRA; cl01230 406425014671 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 406425014672 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 406425014673 homodimer interface [polypeptide binding]; other site 406425014674 active site 406425014675 TDP-binding site; other site 406425014676 acceptor substrate-binding pocket; other site 406425014677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425014678 Helix-turn-helix domains; Region: HTH; cl00088 406425014679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425014680 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425014681 Helix-turn-helix domains; Region: HTH; cl00088 406425014682 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 406425014683 dimerizarion interface [polypeptide binding]; other site 406425014684 CrgA pocket; other site 406425014685 substrate binding pocket [chemical binding]; other site 406425014686 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 406425014687 lysine transporter; Provisional; Region: PRK10836 406425014688 Cache domain; Region: Cache_1; pfam02743 406425014689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425014690 metal binding site [ion binding]; metal-binding site 406425014691 active site 406425014692 I-site; other site 406425014693 Predicted membrane protein [Function unknown]; Region: COG1289 406425014694 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 406425014695 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 406425014696 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425014697 Ligand Binding Site [chemical binding]; other site 406425014698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425014699 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425014700 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014701 putative substrate translocation pore; other site 406425014702 tartrate dehydrogenase; Provisional; Region: PRK08194 406425014703 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 406425014704 Helix-turn-helix domains; Region: HTH; cl00088 406425014705 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 406425014706 putative effector binding pocket; other site 406425014707 putative dimerization interface [polypeptide binding]; other site 406425014708 transcriptional regulator; Provisional; Region: PRK10632 406425014709 Helix-turn-helix domains; Region: HTH; cl00088 406425014710 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425014711 putative effector binding pocket; other site 406425014712 putative dimerization interface [polypeptide binding]; other site 406425014713 Cupin domain; Region: Cupin_2; cl09118 406425014714 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425014715 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014716 LysE type translocator; Region: LysE; cl00565 406425014717 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425014718 S-adenosylmethionine binding site [chemical binding]; other site 406425014719 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 406425014720 4-hydroxyphenylacetate 3-hydroxylase N terminal; Region: HpaB_N; pfam11794 406425014721 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 406425014722 Flavin Reductases; Region: FlaRed; cl00801 406425014723 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425014724 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 406425014725 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425014726 catalytic residue [active] 406425014727 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425014728 Helix-turn-helix domains; Region: HTH; cl00088 406425014729 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425014730 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 406425014731 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 406425014732 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 406425014733 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425014734 Walker A motif; other site 406425014735 ATP binding site [chemical binding]; other site 406425014736 Walker B motif; other site 406425014737 arginine finger; other site 406425014738 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425014739 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 406425014740 hypothetical protein; Reviewed; Region: PRK09588 406425014741 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 406425014742 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 406425014743 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 406425014744 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 406425014745 homodimer interface [polypeptide binding]; other site 406425014746 substrate-cofactor binding pocket; other site 406425014747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425014748 catalytic residue [active] 406425014749 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425014750 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425014751 trimer interface [polypeptide binding]; other site 406425014752 eyelet of channel; other site 406425014753 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425014754 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425014755 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425014756 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425014757 dimer interface [polypeptide binding]; other site 406425014758 phosphorylation site [posttranslational modification] 406425014759 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425014760 ATP binding site [chemical binding]; other site 406425014761 Mg2+ binding site [ion binding]; other site 406425014762 G-X-G motif; other site 406425014763 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425014764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014765 active site 406425014766 phosphorylation site [posttranslational modification] 406425014767 intermolecular recognition site; other site 406425014768 dimerization interface [polypeptide binding]; other site 406425014769 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425014770 DNA binding site [nucleotide binding] 406425014771 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 406425014772 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014773 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 406425014774 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425014775 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 406425014776 Phosphotransferase enzyme family; Region: APH; pfam01636 406425014777 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425014778 active site 406425014779 ATP binding site [chemical binding]; other site 406425014780 substrate binding site [chemical binding]; other site 406425014781 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 406425014782 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425014783 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425014784 N-terminal plug; other site 406425014785 ligand-binding site [chemical binding]; other site 406425014786 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 406425014787 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425014788 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425014789 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 406425014790 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 406425014791 FAD binding pocket [chemical binding]; other site 406425014792 FAD binding motif [chemical binding]; other site 406425014793 phosphate binding motif [ion binding]; other site 406425014794 beta-alpha-beta structure motif; other site 406425014795 NAD binding pocket [chemical binding]; other site 406425014796 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425014797 catalytic loop [active] 406425014798 iron binding site [ion binding]; other site 406425014799 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425014800 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 406425014801 putative C-terminal domain interface [polypeptide binding]; other site 406425014802 putative GSH binding site (G-site) [chemical binding]; other site 406425014803 putative dimer interface [polypeptide binding]; other site 406425014804 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 406425014805 putative N-terminal domain interface [polypeptide binding]; other site 406425014806 putative dimer interface [polypeptide binding]; other site 406425014807 putative substrate binding pocket (H-site) [chemical binding]; other site 406425014808 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425014809 Helix-turn-helix domains; Region: HTH; cl00088 406425014810 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425014811 putative effector binding pocket; other site 406425014812 dimerization interface [polypeptide binding]; other site 406425014813 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 406425014814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425014815 Helix-turn-helix domains; Region: HTH; cl00088 406425014816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014817 short chain dehydrogenase; Provisional; Region: PRK05650 406425014818 NAD(P) binding site [chemical binding]; other site 406425014819 active site 406425014820 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425014821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014822 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 406425014823 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425014824 nucleophilic elbow; other site 406425014825 catalytic triad; other site 406425014826 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425014827 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 406425014828 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014829 putative substrate translocation pore; other site 406425014830 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425014831 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 406425014832 hypothetical protein; Provisional; Region: PRK09040 406425014833 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425014834 ligand binding site [chemical binding]; other site 406425014835 Domain of unknown function (DUF802); Region: DUF802; pfam05650 406425014836 Domain of unknown function (DUF802); Region: DUF802; pfam05650 406425014837 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 406425014838 LysE type translocator; Region: LysE; cl00565 406425014839 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 406425014840 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425014841 Coenzyme A binding pocket [chemical binding]; other site 406425014842 mercuric reductase; Validated; Region: PRK06370 406425014843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425014844 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425014845 transcriptional regulator; Provisional; Region: PRK10632 406425014846 Helix-turn-helix domains; Region: HTH; cl00088 406425014847 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425014848 putative effector binding pocket; other site 406425014849 putative dimerization interface [polypeptide binding]; other site 406425014850 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 406425014851 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425014852 putative NAD(P) binding site [chemical binding]; other site 406425014853 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 406425014854 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425014855 putative NAD(P) binding site [chemical binding]; other site 406425014856 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425014857 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 406425014858 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 406425014859 putative active site [active] 406425014860 putative NTP binding site [chemical binding]; other site 406425014861 putative nucleic acid binding site [nucleotide binding]; other site 406425014862 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 406425014863 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 406425014864 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425014865 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425014866 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425014867 conserved cys residue [active] 406425014868 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425014869 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 406425014870 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 406425014871 conserved cys residue [active] 406425014872 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425014873 classical (c) SDRs; Region: SDR_c; cd05233 406425014874 NAD(P) binding site [chemical binding]; other site 406425014875 active site 406425014876 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425014877 BON domain; Region: BON; cl02771 406425014878 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425014879 trimer interface [polypeptide binding]; other site 406425014880 eyelet of channel; other site 406425014881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014882 D-galactonate transporter; Region: 2A0114; TIGR00893 406425014883 putative substrate translocation pore; other site 406425014884 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425014885 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425014886 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425014887 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 406425014888 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425014889 active site 406425014890 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425014891 AMP-binding enzyme; Region: AMP-binding; cl15778 406425014892 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425014893 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425014894 Helix-turn-helix domains; Region: HTH; cl00088 406425014895 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014896 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425014897 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014898 putative substrate translocation pore; other site 406425014899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014900 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 406425014901 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425014902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014903 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 406425014904 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425014905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425014906 Helix-turn-helix domains; Region: HTH; cl00088 406425014907 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425014908 dimerization interface [polypeptide binding]; other site 406425014909 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425014910 trimer interface [polypeptide binding]; other site 406425014911 eyelet of channel; other site 406425014912 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425014913 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425014914 putative substrate translocation pore; other site 406425014915 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425014916 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 406425014917 FMN-binding pocket [chemical binding]; other site 406425014918 flavin binding motif; other site 406425014919 phosphate binding motif [ion binding]; other site 406425014920 beta-alpha-beta structure motif; other site 406425014921 NAD binding pocket [chemical binding]; other site 406425014922 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425014923 catalytic loop [active] 406425014924 iron binding site [ion binding]; other site 406425014925 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 406425014926 Helix-turn-helix domains; Region: HTH; cl00088 406425014927 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425014928 substrate binding pocket [chemical binding]; other site 406425014929 dimerization interface [polypeptide binding]; other site 406425014930 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425014931 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425014932 [2Fe-2S] cluster binding site [ion binding]; other site 406425014933 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 406425014934 putative alpha subunit interface [polypeptide binding]; other site 406425014935 putative active site [active] 406425014936 putative substrate binding site [chemical binding]; other site 406425014937 Fe binding site [ion binding]; other site 406425014938 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425014939 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425014940 active site 1 [active] 406425014941 dimer interface [polypeptide binding]; other site 406425014942 hexamer interface [polypeptide binding]; other site 406425014943 active site 2 [active] 406425014944 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425014945 active site 1 [active] 406425014946 dimer interface [polypeptide binding]; other site 406425014947 hexamer interface [polypeptide binding]; other site 406425014948 active site 2 [active] 406425014949 PAS domain; Region: PAS_9; pfam13426 406425014950 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425014951 putative active site [active] 406425014952 heme pocket [chemical binding]; other site 406425014953 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425014954 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425014955 putative active site [active] 406425014956 heme pocket [chemical binding]; other site 406425014957 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425014958 dimer interface [polypeptide binding]; other site 406425014959 phosphorylation site [posttranslational modification] 406425014960 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425014961 ATP binding site [chemical binding]; other site 406425014962 Mg2+ binding site [ion binding]; other site 406425014963 G-X-G motif; other site 406425014964 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425014965 active site 406425014966 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425014967 Amidase; Region: Amidase; cl11426 406425014968 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425014969 classical (c) SDRs; Region: SDR_c; cd05233 406425014970 NAD(P) binding site [chemical binding]; other site 406425014971 active site 406425014972 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 406425014973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425014974 active site 406425014975 phosphorylation site [posttranslational modification] 406425014976 intermolecular recognition site; other site 406425014977 dimerization interface [polypeptide binding]; other site 406425014978 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425014979 DNA binding residues [nucleotide binding] 406425014980 dimerization interface [polypeptide binding]; other site 406425014981 Flavin Reductases; Region: FlaRed; cl00801 406425014982 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 406425014983 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425014984 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425014985 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 406425014986 Helix-turn-helix domains; Region: HTH; cl00088 406425014987 AsnC family; Region: AsnC_trans_reg; pfam01037 406425014988 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 406425014989 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425014990 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425014991 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425014992 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425014993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425014994 choline dehydrogenase; Validated; Region: PRK02106 406425014995 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425014996 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425014997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425014998 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425014999 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 406425015000 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425015001 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 406425015002 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 406425015003 active site 406425015004 LssY C-terminus; Region: LssY_C; pfam14067 406425015005 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425015006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015007 active site 406425015008 phosphorylation site [posttranslational modification] 406425015009 intermolecular recognition site; other site 406425015010 dimerization interface [polypeptide binding]; other site 406425015011 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015012 DNA binding residues [nucleotide binding] 406425015013 dimerization interface [polypeptide binding]; other site 406425015014 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 406425015015 Histidine kinase; Region: HisKA_3; pfam07730 406425015016 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 406425015017 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015018 D-galactonate transporter; Region: 2A0114; TIGR00893 406425015019 putative substrate translocation pore; other site 406425015020 NMT1-like family; Region: NMT1_2; cl15260 406425015021 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425015022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015023 active site 406425015024 phosphorylation site [posttranslational modification] 406425015025 intermolecular recognition site; other site 406425015026 dimerization interface [polypeptide binding]; other site 406425015027 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425015028 DNA binding site [nucleotide binding] 406425015029 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 406425015030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425015031 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425015032 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 406425015033 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015034 ATP binding site [chemical binding]; other site 406425015035 Mg2+ binding site [ion binding]; other site 406425015036 G-X-G motif; other site 406425015037 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425015038 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425015039 Walker A/P-loop; other site 406425015040 ATP binding site [chemical binding]; other site 406425015041 Q-loop/lid; other site 406425015042 ABC transporter signature motif; other site 406425015043 Walker B; other site 406425015044 D-loop; other site 406425015045 H-loop/switch region; other site 406425015046 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425015047 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425015048 Walker A/P-loop; other site 406425015049 ATP binding site [chemical binding]; other site 406425015050 Q-loop/lid; other site 406425015051 ABC transporter signature motif; other site 406425015052 Walker B; other site 406425015053 D-loop; other site 406425015054 H-loop/switch region; other site 406425015055 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425015056 TM-ABC transporter signature motif; other site 406425015057 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425015058 TM-ABC transporter signature motif; other site 406425015059 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425015060 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 406425015061 putative ligand binding site [chemical binding]; other site 406425015062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015063 Helix-turn-helix domains; Region: HTH; cl00088 406425015064 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015065 dimerization interface [polypeptide binding]; other site 406425015066 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425015067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015068 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425015069 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425015070 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 406425015071 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425015072 Helix-turn-helix domains; Region: HTH; cl00088 406425015073 AsnC family; Region: AsnC_trans_reg; pfam01037 406425015074 ornithine cyclodeaminase; Validated; Region: PRK07589 406425015075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015076 Amidinotransferase; Region: Amidinotransf; cl12043 406425015077 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 406425015078 DNA-K related protein; Region: DUF3731; pfam12531 406425015079 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 406425015080 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 406425015081 Helix-turn-helix domains; Region: HTH; cl00088 406425015082 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 406425015083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015085 Helix-turn-helix domains; Region: HTH; cl00088 406425015086 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015087 dimerization interface [polypeptide binding]; other site 406425015088 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 406425015089 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 406425015090 dimer interface [polypeptide binding]; other site 406425015091 active site 406425015092 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425015093 substrate binding site [chemical binding]; other site 406425015094 catalytic residue [active] 406425015095 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 406425015096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015097 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 406425015098 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425015099 motif II; other site 406425015100 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425015101 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 406425015102 putative C-terminal domain interface [polypeptide binding]; other site 406425015103 putative GSH binding site (G-site) [chemical binding]; other site 406425015104 putative dimer interface [polypeptide binding]; other site 406425015105 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 406425015106 dimer interface [polypeptide binding]; other site 406425015107 N-terminal domain interface [polypeptide binding]; other site 406425015108 putative substrate binding pocket (H-site) [chemical binding]; other site 406425015109 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425015110 Helix-turn-helix domains; Region: HTH; cl00088 406425015111 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425015112 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 406425015113 tetramer interface [polypeptide binding]; other site 406425015114 active site 406425015115 Mg2+/Mn2+ binding site [ion binding]; other site 406425015116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015117 Helix-turn-helix domains; Region: HTH; cl00088 406425015118 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425015119 putative effector binding pocket; other site 406425015120 putative dimerization interface [polypeptide binding]; other site 406425015121 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425015122 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425015123 active site 406425015124 catalytic tetrad [active] 406425015125 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015126 putative substrate translocation pore; other site 406425015127 Cupin domain; Region: Cupin_2; cl09118 406425015128 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015129 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425015130 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015131 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 406425015132 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 406425015133 enoyl-CoA hydratase; Validated; Region: PRK08788 406425015134 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425015135 substrate binding site [chemical binding]; other site 406425015136 oxyanion hole (OAH) forming residues; other site 406425015137 trimer interface [polypeptide binding]; other site 406425015138 RNase II stability modulator; Provisional; Region: PRK10060 406425015139 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425015140 putative active site [active] 406425015141 heme pocket [chemical binding]; other site 406425015142 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425015143 metal binding site [ion binding]; metal-binding site 406425015144 active site 406425015145 I-site; other site 406425015146 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425015147 5-oxoprolinase; Region: PLN02666 406425015148 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 406425015149 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 406425015150 benzoate transport; Region: 2A0115; TIGR00895 406425015151 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015152 putative substrate translocation pore; other site 406425015153 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 406425015154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015155 Helix-turn-helix domains; Region: HTH; cl00088 406425015156 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425015157 dimerization interface [polypeptide binding]; other site 406425015158 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 406425015159 NMT1-like family; Region: NMT1_2; cl15260 406425015160 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 406425015161 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 406425015162 Sulfatase; Region: Sulfatase; cl10460 406425015163 Sulfatase; Region: Sulfatase; cl10460 406425015164 Sulfatase; Region: Sulfatase; cl10460 406425015165 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425015166 classical (c) SDRs; Region: SDR_c; cd05233 406425015167 NAD(P) binding site [chemical binding]; other site 406425015168 active site 406425015169 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425015170 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015171 putative substrate translocation pore; other site 406425015172 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425015173 Helix-turn-helix domains; Region: HTH; cl00088 406425015174 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 406425015175 putative effector binding pocket; other site 406425015176 putative dimerization interface [polypeptide binding]; other site 406425015177 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 406425015178 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425015179 putative NAD(P) binding site [chemical binding]; other site 406425015180 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 406425015181 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425015182 N-terminal plug; other site 406425015183 ligand-binding site [chemical binding]; other site 406425015184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015185 putative substrate translocation pore; other site 406425015186 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425015187 NMT1-like family; Region: NMT1_2; cl15260 406425015188 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 406425015189 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425015190 Gram-negative bacterial tonB protein; Region: TonB; cl10048 406425015191 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425015192 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425015193 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 406425015194 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425015195 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425015196 NMT1-like family; Region: NMT1_2; cl15260 406425015197 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425015198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425015199 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 406425015200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425015201 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 406425015202 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425015203 Walker A motif; other site 406425015204 ATP binding site [chemical binding]; other site 406425015205 Walker B motif; other site 406425015206 arginine finger; other site 406425015207 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 406425015208 active site 406425015209 Zn2+ binding site [ion binding]; other site 406425015210 intersubunit interface [polypeptide binding]; other site 406425015211 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 406425015212 Secretory lipase; Region: LIP; pfam03583 406425015213 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 406425015214 oligomerisation interface [polypeptide binding]; other site 406425015215 mobile loop; other site 406425015216 roof hairpin; other site 406425015217 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 406425015218 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 406425015219 ring oligomerisation interface [polypeptide binding]; other site 406425015220 ATP/Mg binding site [chemical binding]; other site 406425015221 stacking interactions; other site 406425015222 hinge regions; other site 406425015223 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 406425015224 active site 406425015225 phosphorylation site [posttranslational modification] 406425015226 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 406425015227 nucleotide binding site [chemical binding]; other site 406425015228 substrate binding site [chemical binding]; other site 406425015229 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 406425015230 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 406425015231 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425015232 catalytic residue [active] 406425015233 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425015234 non-specific DNA binding site [nucleotide binding]; other site 406425015235 salt bridge; other site 406425015236 sequence-specific DNA binding site [nucleotide binding]; other site 406425015237 serine O-acetyltransferase; Region: cysE; TIGR01172 406425015238 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 406425015239 trimer interface [polypeptide binding]; other site 406425015240 active site 406425015241 substrate binding site [chemical binding]; other site 406425015242 CoA binding site [chemical binding]; other site 406425015243 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 406425015244 active site residue [active] 406425015245 amidase; Provisional; Region: PRK07487 406425015246 Amidase; Region: Amidase; cl11426 406425015247 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425015248 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425015249 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425015250 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425015251 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 406425015252 homodimer interface [polypeptide binding]; other site 406425015253 catalytic residues [active] 406425015254 NAD binding site [chemical binding]; other site 406425015255 substrate binding pocket [chemical binding]; other site 406425015256 flexible flap; other site 406425015257 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425015258 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425015259 DNA-binding site [nucleotide binding]; DNA binding site 406425015260 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425015261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425015262 homodimer interface [polypeptide binding]; other site 406425015263 catalytic residue [active] 406425015264 Epoxide hydrolase N terminus; Region: EHN; pfam06441 406425015265 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 406425015266 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 406425015267 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 406425015268 putative NAD(P) binding site [chemical binding]; other site 406425015269 putative active site [active] 406425015270 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425015271 Helix-turn-helix domains; Region: HTH; cl00088 406425015272 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425015273 dimerization interface [polypeptide binding]; other site 406425015274 substrate binding pocket [chemical binding]; other site 406425015275 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425015276 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 406425015277 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 406425015278 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425015279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425015280 homodimer interface [polypeptide binding]; other site 406425015281 catalytic residue [active] 406425015282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425015283 EamA-like transporter family; Region: EamA; cl01037 406425015284 EamA-like transporter family; Region: EamA; cl01037 406425015285 Helix-turn-helix domains; Region: HTH; cl00088 406425015286 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015287 dimerization interface [polypeptide binding]; other site 406425015288 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425015289 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425015290 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425015291 Coenzyme A binding pocket [chemical binding]; other site 406425015292 malic enzyme; Reviewed; Region: PRK12861 406425015293 Malic enzyme, N-terminal domain; Region: malic; pfam00390 406425015294 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 406425015295 putative NAD(P) binding site [chemical binding]; other site 406425015296 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 406425015297 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425015298 Helix-turn-helix domains; Region: HTH; cl00088 406425015299 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015300 dimerization interface [polypeptide binding]; other site 406425015301 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425015302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425015303 DNA-binding site [nucleotide binding]; DNA binding site 406425015304 FCD domain; Region: FCD; cl11656 406425015305 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425015306 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425015307 dimerization interface [polypeptide binding]; other site 406425015308 ligand binding site [chemical binding]; other site 406425015309 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425015310 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425015311 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 406425015312 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 406425015313 AMP-binding enzyme; Region: AMP-binding; cl15778 406425015314 AMP-binding enzyme; Region: AMP-binding; cl15778 406425015315 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 406425015316 putative deacylase active site [active] 406425015317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425015318 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425015319 active site 406425015320 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 406425015321 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425015322 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 406425015323 putative C-terminal domain interface [polypeptide binding]; other site 406425015324 putative GSH binding site (G-site) [chemical binding]; other site 406425015325 putative dimer interface [polypeptide binding]; other site 406425015326 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 406425015327 putative N-terminal domain interface [polypeptide binding]; other site 406425015328 putative dimer interface [polypeptide binding]; other site 406425015329 putative substrate binding pocket (H-site) [chemical binding]; other site 406425015330 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425015331 Helix-turn-helix domains; Region: HTH; cl00088 406425015332 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425015333 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 406425015334 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 406425015335 dimer interface [polypeptide binding]; other site 406425015336 putative functional site; other site 406425015337 putative MPT binding site; other site 406425015338 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 406425015339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 406425015340 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 406425015341 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425015342 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425015343 catalytic residue [active] 406425015344 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425015345 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425015346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015347 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 406425015348 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425015349 dimerization interface [polypeptide binding]; other site 406425015350 ligand binding site [chemical binding]; other site 406425015351 CsbD-like; Region: CsbD; cl15799 406425015352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425015353 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425015354 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425015355 sensory histidine kinase AtoS; Provisional; Region: PRK11360 406425015356 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425015357 PAS domain S-box; Region: sensory_box; TIGR00229 406425015358 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425015359 PAS domain S-box; Region: sensory_box; TIGR00229 406425015360 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425015361 two component system sensor kinase SsrB; Provisional; Region: PRK15369 406425015362 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015363 DNA binding residues [nucleotide binding] 406425015364 dimerization interface [polypeptide binding]; other site 406425015365 outer membrane lipoprotein; Provisional; Region: PRK11023 406425015366 CsbD-like; Region: CsbD; cl15799 406425015367 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 406425015368 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425015369 Helix-turn-helix domains; Region: HTH; cl00088 406425015370 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015371 dimerization interface [polypeptide binding]; other site 406425015372 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 406425015373 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425015374 N-terminal plug; other site 406425015375 ligand-binding site [chemical binding]; other site 406425015376 ankyrin repeat protein; Provisional; Region: PHA03100 406425015377 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 406425015378 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 406425015379 tetrameric interface [polypeptide binding]; other site 406425015380 activator binding site; other site 406425015381 NADP binding site [chemical binding]; other site 406425015382 substrate binding site [chemical binding]; other site 406425015383 catalytic residues [active] 406425015384 LysE type translocator; Region: LysE; cl00565 406425015385 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 406425015386 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 406425015387 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 406425015388 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425015389 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425015390 N-terminal plug; other site 406425015391 ligand-binding site [chemical binding]; other site 406425015392 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 406425015393 putative active site [active] 406425015394 putative FMN binding site [chemical binding]; other site 406425015395 putative substrate binding site [chemical binding]; other site 406425015396 putative catalytic residue [active] 406425015397 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 406425015398 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 406425015399 DNA binding residues [nucleotide binding] 406425015400 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 406425015401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425015402 NAD(P) binding site [chemical binding]; other site 406425015403 active site 406425015404 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425015405 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425015406 DNA binding site [nucleotide binding] 406425015407 domain linker motif; other site 406425015408 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 406425015409 dimerization interface [polypeptide binding]; other site 406425015410 ligand binding site [chemical binding]; other site 406425015411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015412 D-galactonate transporter; Region: 2A0114; TIGR00893 406425015413 putative substrate translocation pore; other site 406425015414 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 406425015415 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 406425015416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015417 AlkA N-terminal domain; Region: AlkA_N; cl05528 406425015418 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 406425015419 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 406425015420 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 406425015421 DNA binding site [nucleotide binding] 406425015422 active site 406425015423 Cupin domain; Region: Cupin_2; cl09118 406425015424 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425015425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015426 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 406425015427 oligomerization interface [polypeptide binding]; other site 406425015428 active site 406425015429 metal binding site [ion binding]; metal-binding site 406425015430 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425015431 Helix-turn-helix domains; Region: HTH; cl00088 406425015432 AsnC family; Region: AsnC_trans_reg; pfam01037 406425015433 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 406425015434 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 406425015435 glutaminase active site [active] 406425015436 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 406425015437 dimer interface [polypeptide binding]; other site 406425015438 active site 406425015439 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 406425015440 dimer interface [polypeptide binding]; other site 406425015441 active site 406425015442 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425015443 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 406425015444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015445 ATP binding site [chemical binding]; other site 406425015446 Mg2+ binding site [ion binding]; other site 406425015447 G-X-G motif; other site 406425015448 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425015449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015450 active site 406425015451 phosphorylation site [posttranslational modification] 406425015452 intermolecular recognition site; other site 406425015453 dimerization interface [polypeptide binding]; other site 406425015454 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425015455 DNA binding site [nucleotide binding] 406425015456 MltA-interacting protein MipA; Region: MipA; cl01504 406425015457 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425015458 trimer interface [polypeptide binding]; other site 406425015459 eyelet of channel; other site 406425015460 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 406425015461 iron-sulfur cluster [ion binding]; other site 406425015462 [2Fe-2S] cluster binding site [ion binding]; other site 406425015463 YCII-related domain; Region: YCII; cl00999 406425015464 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 406425015465 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 406425015466 active site 406425015467 dimer interface [polypeptide binding]; other site 406425015468 metal binding site [ion binding]; metal-binding site 406425015469 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425015470 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 406425015471 NAD(P) binding site [chemical binding]; other site 406425015472 catalytic residues [active] 406425015473 Cupin domain; Region: Cupin_2; cl09118 406425015474 Helix-turn-helix domains; Region: HTH; cl00088 406425015475 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425015476 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425015477 putative effector binding pocket; other site 406425015478 dimerization interface [polypeptide binding]; other site 406425015479 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015480 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425015481 putative substrate translocation pore; other site 406425015482 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425015483 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 406425015484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425015485 catalytic residue [active] 406425015486 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 406425015487 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425015488 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 406425015489 NAD(P) binding site [chemical binding]; other site 406425015490 DJ-1 family protein; Region: not_thiJ; TIGR01383 406425015491 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425015492 conserved cys residue [active] 406425015493 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425015494 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425015495 conserved cys residue [active] 406425015496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425015498 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425015499 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425015500 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 406425015501 generic binding surface I; other site 406425015502 generic binding surface II; other site 406425015503 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 406425015504 putative active site [active] 406425015505 putative catalytic site [active] 406425015506 putative Mg binding site IVb [ion binding]; other site 406425015507 putative phosphate binding site [ion binding]; other site 406425015508 putative DNA binding site [nucleotide binding]; other site 406425015509 putative Mg binding site IVa [ion binding]; other site 406425015510 Bacterial Ig-like domain; Region: Big_5; cl01012 406425015511 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 406425015512 FtsI repressor; Provisional; Region: PRK10883 406425015513 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425015514 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425015515 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 406425015516 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 406425015517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015518 active site 406425015519 phosphorylation site [posttranslational modification] 406425015520 intermolecular recognition site; other site 406425015521 dimerization interface [polypeptide binding]; other site 406425015522 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425015523 DNA binding site [nucleotide binding] 406425015524 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 406425015525 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425015526 dimerization interface [polypeptide binding]; other site 406425015527 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015528 dimer interface [polypeptide binding]; other site 406425015529 phosphorylation site [posttranslational modification] 406425015530 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015531 ATP binding site [chemical binding]; other site 406425015532 Mg2+ binding site [ion binding]; other site 406425015533 G-X-G motif; other site 406425015534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015535 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425015536 putative substrate translocation pore; other site 406425015537 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 406425015538 Cation efflux family; Region: Cation_efflux; cl00316 406425015539 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 406425015540 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 406425015541 putative metal binding site [ion binding]; other site 406425015542 putative homodimer interface [polypeptide binding]; other site 406425015543 putative homotetramer interface [polypeptide binding]; other site 406425015544 putative homodimer-homodimer interface [polypeptide binding]; other site 406425015545 putative allosteric switch controlling residues; other site 406425015546 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 406425015547 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 406425015548 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 406425015549 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 406425015550 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 406425015551 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 406425015552 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425015553 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 406425015554 Outer membrane efflux protein; Region: OEP; pfam02321 406425015555 Outer membrane efflux protein; Region: OEP; pfam02321 406425015556 glutathionine S-transferase; Provisional; Region: PRK10542 406425015557 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 406425015558 C-terminal domain interface [polypeptide binding]; other site 406425015559 GSH binding site (G-site) [chemical binding]; other site 406425015560 dimer interface [polypeptide binding]; other site 406425015561 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 406425015562 dimer interface [polypeptide binding]; other site 406425015563 N-terminal domain interface [polypeptide binding]; other site 406425015564 substrate binding pocket (H-site) [chemical binding]; other site 406425015565 Helix-turn-helix domains; Region: HTH; cl00088 406425015566 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425015567 D-galactonate transporter; Region: 2A0114; TIGR00893 406425015568 putative substrate translocation pore; other site 406425015569 transcriptional regulator EpsA; Region: EpsA; TIGR03020 406425015570 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015571 DNA binding residues [nucleotide binding] 406425015572 dimerization interface [polypeptide binding]; other site 406425015573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425015574 Coenzyme A binding pocket [chemical binding]; other site 406425015575 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 406425015576 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425015577 S-adenosylmethionine binding site [chemical binding]; other site 406425015578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015579 Helix-turn-helix domains; Region: HTH; cl00088 406425015580 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425015581 putative dimerization interface [polypeptide binding]; other site 406425015582 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425015583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425015584 Coenzyme A binding pocket [chemical binding]; other site 406425015585 cyanate hydratase; Validated; Region: PRK02866 406425015586 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 406425015587 oligomer interface [polypeptide binding]; other site 406425015588 active site 406425015589 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 406425015590 active site clefts [active] 406425015591 zinc binding site [ion binding]; other site 406425015592 dimer interface [polypeptide binding]; other site 406425015593 Probable transposase; Region: OrfB_IS605; pfam01385 406425015594 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 406425015595 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425015596 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 406425015597 Helix-turn-helix domains; Region: HTH; cl00088 406425015598 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 406425015599 dimerization interface [polypeptide binding]; other site 406425015600 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425015601 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 406425015602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425015603 Helix-turn-helix domains; Region: HTH; cl00088 406425015604 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425015605 dimerization interface [polypeptide binding]; other site 406425015606 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425015607 OpgC protein; Region: OpgC_C; cl00792 406425015608 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425015609 pyruvate dehydrogenase; Provisional; Region: PRK09124 406425015610 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 406425015611 PYR/PP interface [polypeptide binding]; other site 406425015612 tetramer interface [polypeptide binding]; other site 406425015613 dimer interface [polypeptide binding]; other site 406425015614 TPP binding site [chemical binding]; other site 406425015615 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425015616 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 406425015617 TPP-binding site [chemical binding]; other site 406425015618 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425015619 Helix-turn-helix domains; Region: HTH; cl00088 406425015620 AsnC family; Region: AsnC_trans_reg; pfam01037 406425015621 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 406425015622 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 406425015623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425015624 catalytic residue [active] 406425015625 TolB amino-terminal domain; Region: TolB_N; cl00639 406425015626 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 406425015627 Sel1 repeat; Region: Sel1; cl02723 406425015628 BetR domain; Region: BetR; pfam08667 406425015629 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425015630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015631 active site 406425015632 phosphorylation site [posttranslational modification] 406425015633 intermolecular recognition site; other site 406425015634 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 406425015635 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015636 dimer interface [polypeptide binding]; other site 406425015637 phosphorylation site [posttranslational modification] 406425015638 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015639 ATP binding site [chemical binding]; other site 406425015640 Mg2+ binding site [ion binding]; other site 406425015641 G-X-G motif; other site 406425015642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015643 Response regulator receiver domain; Region: Response_reg; pfam00072 406425015644 active site 406425015645 phosphorylation site [posttranslational modification] 406425015646 intermolecular recognition site; other site 406425015647 dimerization interface [polypeptide binding]; other site 406425015648 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 406425015649 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 406425015650 catalytic residues [active] 406425015651 Flavin Reductases; Region: FlaRed; cl00801 406425015652 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 406425015653 LysE type translocator; Region: LysE; cl00565 406425015654 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 406425015655 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425015656 salt bridge; other site 406425015657 non-specific DNA binding site [nucleotide binding]; other site 406425015658 sequence-specific DNA binding site [nucleotide binding]; other site 406425015659 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425015660 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425015661 putative DNA binding site [nucleotide binding]; other site 406425015662 putative Zn2+ binding site [ion binding]; other site 406425015663 AsnC family; Region: AsnC_trans_reg; pfam01037 406425015664 AzlC protein; Region: AzlC; cl00570 406425015665 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 406425015666 Survival protein SurE; Region: SurE; cl00448 406425015667 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 406425015668 classical (c) SDRs; Region: SDR_c; cd05233 406425015669 NAD(P) binding site [chemical binding]; other site 406425015670 active site 406425015671 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 406425015672 putative active site [active] 406425015673 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 406425015674 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 406425015675 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 406425015676 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 406425015677 Cupin domain; Region: Cupin_2; cl09118 406425015678 allantoate amidohydrolase; Reviewed; Region: PRK12892 406425015679 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 406425015680 active site 406425015681 metal binding site [ion binding]; metal-binding site 406425015682 dimer interface [polypeptide binding]; other site 406425015683 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425015684 Helix-turn-helix domains; Region: HTH; cl00088 406425015685 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425015686 dimerization interface [polypeptide binding]; other site 406425015687 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425015688 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425015689 catalytic residue [active] 406425015690 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425015691 dimerization interface [polypeptide binding]; other site 406425015692 putative DNA binding site [nucleotide binding]; other site 406425015693 putative Zn2+ binding site [ion binding]; other site 406425015694 transcriptional activator TtdR; Provisional; Region: PRK09801 406425015695 Helix-turn-helix domains; Region: HTH; cl00088 406425015696 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425015697 putative effector binding pocket; other site 406425015698 dimerization interface [polypeptide binding]; other site 406425015699 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425015700 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425015701 active site 406425015702 catalytic tetrad [active] 406425015703 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425015704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425015705 Walker A/P-loop; other site 406425015706 ATP binding site [chemical binding]; other site 406425015707 Q-loop/lid; other site 406425015708 ABC transporter signature motif; other site 406425015709 Walker B; other site 406425015710 D-loop; other site 406425015711 H-loop/switch region; other site 406425015712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425015713 Coenzyme A binding pocket [chemical binding]; other site 406425015714 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425015715 non-specific DNA binding site [nucleotide binding]; other site 406425015716 salt bridge; other site 406425015717 sequence-specific DNA binding site [nucleotide binding]; other site 406425015718 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425015719 S-adenosylmethionine binding site [chemical binding]; other site 406425015720 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425015721 oligomeric interface; other site 406425015722 putative active site [active] 406425015723 homodimer interface [polypeptide binding]; other site 406425015724 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425015725 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 406425015726 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425015727 catalytic residues [active] 406425015728 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425015729 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 406425015730 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 406425015731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 406425015732 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 406425015733 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 406425015734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425015735 Walker A motif; other site 406425015736 ATP binding site [chemical binding]; other site 406425015737 Walker B motif; other site 406425015738 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 406425015739 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 406425015740 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 406425015741 Walker A motif; other site 406425015742 hexamer interface [polypeptide binding]; other site 406425015743 ATP binding site [chemical binding]; other site 406425015744 Walker B motif; other site 406425015745 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 406425015746 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 406425015747 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 406425015748 VirB7 interaction site; other site 406425015749 VirB8 protein; Region: VirB8; cl01500 406425015750 Type IV secretion system proteins; Region: T4SS; pfam07996 406425015751 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 406425015752 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 406425015753 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 406425015754 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 406425015755 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 406425015756 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425015757 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425015758 catalytic residue [active] 406425015759 Protein of unknown function (DUF4243); Region: DUF4243; pfam14027 406425015760 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425015761 Helix-turn-helix domains; Region: HTH; cl00088 406425015762 Integrase core domain; Region: rve; cl01316 406425015763 Isochorismatase family; Region: Isochorismatase; pfam00857 406425015764 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425015765 catalytic triad [active] 406425015766 conserved cis-peptide bond; other site 406425015767 Helix-turn-helix domains; Region: HTH; cl00088 406425015768 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425015769 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425015770 putative effector binding pocket; other site 406425015771 dimerization interface [polypeptide binding]; other site 406425015772 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 406425015773 catalytic residues [active] 406425015774 Ion transport protein; Region: Ion_trans; pfam00520 406425015775 Ion channel; Region: Ion_trans_2; cl11596 406425015776 MarC family integral membrane protein; Region: MarC; cl00919 406425015777 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425015778 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 406425015779 Membrane transport protein; Region: Mem_trans; cl09117 406425015780 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425015781 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425015782 active site 406425015783 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425015784 dimerization interface [polypeptide binding]; other site 406425015785 putative DNA binding site [nucleotide binding]; other site 406425015786 putative Zn2+ binding site [ion binding]; other site 406425015787 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425015788 response regulator FixJ; Provisional; Region: fixJ; PRK09390 406425015789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015790 active site 406425015791 phosphorylation site [posttranslational modification] 406425015792 intermolecular recognition site; other site 406425015793 dimerization interface [polypeptide binding]; other site 406425015794 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015795 DNA binding residues [nucleotide binding] 406425015796 dimerization interface [polypeptide binding]; other site 406425015797 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015798 dimer interface [polypeptide binding]; other site 406425015799 phosphorylation site [posttranslational modification] 406425015800 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015801 ATP binding site [chemical binding]; other site 406425015802 Mg2+ binding site [ion binding]; other site 406425015803 G-X-G motif; other site 406425015804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015805 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425015806 active site 406425015807 phosphorylation site [posttranslational modification] 406425015808 intermolecular recognition site; other site 406425015809 dimerization interface [polypeptide binding]; other site 406425015810 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425015811 DNA binding site [nucleotide binding] 406425015812 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 406425015813 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015814 dimer interface [polypeptide binding]; other site 406425015815 phosphorylation site [posttranslational modification] 406425015816 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015817 ATP binding site [chemical binding]; other site 406425015818 Mg2+ binding site [ion binding]; other site 406425015819 G-X-G motif; other site 406425015820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015821 active site 406425015822 phosphorylation site [posttranslational modification] 406425015823 intermolecular recognition site; other site 406425015824 dimerization interface [polypeptide binding]; other site 406425015825 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425015826 YadA-like C-terminal region; Region: YadA; pfam03895 406425015827 transcriptional regulator RcsB; Provisional; Region: PRK10840 406425015828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015829 active site 406425015830 phosphorylation site [posttranslational modification] 406425015831 intermolecular recognition site; other site 406425015832 dimerization interface [polypeptide binding]; other site 406425015833 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015834 DNA binding residues [nucleotide binding] 406425015835 dimerization interface [polypeptide binding]; other site 406425015836 transcriptional regulator RcsB; Provisional; Region: PRK10840 406425015837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015838 active site 406425015839 phosphorylation site [posttranslational modification] 406425015840 intermolecular recognition site; other site 406425015841 dimerization interface [polypeptide binding]; other site 406425015842 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015843 DNA binding residues [nucleotide binding] 406425015844 dimerization interface [polypeptide binding]; other site 406425015845 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425015846 ligand binding site [chemical binding]; other site 406425015847 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425015848 Haemagglutinin; Region: HIM; pfam05662 406425015849 Haemagglutinin; Region: HIM; pfam05662 406425015850 YadA-like C-terminal region; Region: YadA; pfam03895 406425015851 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 406425015852 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425015853 dimer interface [polypeptide binding]; other site 406425015854 phosphorylation site [posttranslational modification] 406425015855 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425015856 ATP binding site [chemical binding]; other site 406425015857 Mg2+ binding site [ion binding]; other site 406425015858 G-X-G motif; other site 406425015859 Response regulator receiver domain; Region: Response_reg; pfam00072 406425015860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425015861 active site 406425015862 phosphorylation site [posttranslational modification] 406425015863 intermolecular recognition site; other site 406425015864 dimerization interface [polypeptide binding]; other site 406425015865 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 406425015866 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425015867 binding surface 406425015868 TPR motif; other site 406425015869 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425015870 TPR motif; other site 406425015871 binding surface 406425015872 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 406425015873 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 406425015874 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 406425015875 nudix motif; other site 406425015876 SurA N-terminal domain; Region: SurA_N_3; cl07813 406425015877 PPIC-type PPIASE domain; Region: Rotamase; cl08278 406425015878 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 406425015879 active site 406425015880 zinc binding site [ion binding]; other site 406425015881 putative transposase OrfB; Reviewed; Region: PHA02517 406425015882 HTH-like domain; Region: HTH_21; pfam13276 406425015883 Integrase core domain; Region: rve; cl01316 406425015884 Integrase core domain; Region: rve_3; cl15866 406425015885 Helix-turn-helix domains; Region: HTH; cl00088 406425015886 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 406425015887 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 406425015888 tetramer interface [polypeptide binding]; other site 406425015889 heme binding pocket [chemical binding]; other site 406425015890 Amino acid permease; Region: AA_permease_2; pfam13520 406425015891 CoA-binding domain; Region: CoA_binding_3; pfam13727 406425015892 Bacterial sugar transferase; Region: Bac_transf; cl00939 406425015893 polysaccharide export protein Wza; Provisional; Region: PRK15078 406425015894 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 406425015895 SLBB domain; Region: SLBB; pfam10531 406425015896 Low molecular weight phosphatase family; Region: LMWPc; cd00115 406425015897 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 406425015898 active site 406425015899 tyrosine kinase; Provisional; Region: PRK11519 406425015900 Chain length determinant protein; Region: Wzz; cl15801 406425015901 Chain length determinant protein; Region: Wzz; cl15801 406425015902 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425015903 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425015904 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 406425015905 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 406425015906 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 406425015907 2-isopropylmalate synthase; Validated; Region: PRK03739 406425015908 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 406425015909 active site 406425015910 catalytic residues [active] 406425015911 metal binding site [ion binding]; metal-binding site 406425015912 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 406425015913 IS2 transposase TnpB; Reviewed; Region: PRK09409 406425015914 HTH-like domain; Region: HTH_21; pfam13276 406425015915 Integrase core domain; Region: rve; cl01316 406425015916 Integrase core domain; Region: rve_3; cl15866 406425015917 Helix-turn-helix domains; Region: HTH; cl00088 406425015918 Helix-turn-helix domains; Region: HTH; cl00088 406425015919 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425015920 Helix-turn-helix domains; Region: HTH; cl00088 406425015921 Integrase core domain; Region: rve; cl01316 406425015922 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425015923 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425015924 oligomeric interface; other site 406425015925 putative active site [active] 406425015926 homodimer interface [polypeptide binding]; other site 406425015927 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425015928 trimer interface [polypeptide binding]; other site 406425015929 eyelet of channel; other site 406425015930 Amino acid synthesis; Region: AA_synth; pfam06684 406425015931 putative amidase; Provisional; Region: PRK06169 406425015932 Amidase; Region: Amidase; cl11426 406425015933 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425015934 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 406425015935 ligand binding site [chemical binding]; other site 406425015936 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425015937 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425015938 Walker A/P-loop; other site 406425015939 ATP binding site [chemical binding]; other site 406425015940 Q-loop/lid; other site 406425015941 ABC transporter signature motif; other site 406425015942 Walker B; other site 406425015943 D-loop; other site 406425015944 H-loop/switch region; other site 406425015945 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 406425015946 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425015947 Walker A/P-loop; other site 406425015948 ATP binding site [chemical binding]; other site 406425015949 Q-loop/lid; other site 406425015950 ABC transporter signature motif; other site 406425015951 Walker B; other site 406425015952 D-loop; other site 406425015953 H-loop/switch region; other site 406425015954 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425015955 TM-ABC transporter signature motif; other site 406425015956 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425015957 TM-ABC transporter signature motif; other site 406425015958 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425015959 non-specific DNA binding site [nucleotide binding]; other site 406425015960 salt bridge; other site 406425015961 sequence-specific DNA binding site [nucleotide binding]; other site 406425015962 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425015963 non-specific DNA binding site [nucleotide binding]; other site 406425015964 salt bridge; other site 406425015965 sequence-specific DNA binding site [nucleotide binding]; other site 406425015966 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425015967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425015968 DNA-binding site [nucleotide binding]; DNA binding site 406425015969 FCD domain; Region: FCD; cl11656 406425015970 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425015971 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425015972 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425015973 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425015974 active site 406425015975 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 406425015976 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425015977 active site 406425015978 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 406425015979 AMP-binding enzyme; Region: AMP-binding; cl15778 406425015980 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 406425015981 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 406425015982 dimer interface [polypeptide binding]; other site 406425015983 active site 406425015984 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425015985 catalytic residues [active] 406425015986 substrate binding site [chemical binding]; other site 406425015987 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425015988 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425015989 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425015990 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425015991 active site 406425015992 hypothetical protein; Validated; Region: PRK06840 406425015993 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 406425015994 active site 406425015995 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425015996 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425015997 DNA binding residues [nucleotide binding] 406425015998 dimerization interface [polypeptide binding]; other site 406425015999 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425016000 H-NS histone family; Region: Histone_HNS; pfam00816 406425016001 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425016002 Ion transport protein; Region: Ion_trans; pfam00520 406425016003 Ion channel; Region: Ion_trans_2; cl11596 406425016004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016005 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425016006 putative substrate translocation pore; other site 406425016007 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016008 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 406425016009 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425016010 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425016011 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425016012 Cupin domain; Region: Cupin_2; cl09118 406425016013 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425016014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016016 Helix-turn-helix domains; Region: HTH; cl00088 406425016017 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016018 putative effector binding pocket; other site 406425016019 dimerization interface [polypeptide binding]; other site 406425016020 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 406425016021 putative hydrophobic ligand binding site [chemical binding]; other site 406425016022 protein interface [polypeptide binding]; other site 406425016023 gate; other site 406425016024 dicarboxylate--CoA ligase PimA; Region: pimA; TIGR03205 406425016025 AMP-binding enzyme; Region: AMP-binding; cl15778 406425016026 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425016027 thioester reductase domain; Region: Thioester-redct; TIGR01746 406425016028 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 406425016029 putative NAD(P) binding site [chemical binding]; other site 406425016030 active site 406425016031 putative substrate binding site [chemical binding]; other site 406425016032 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 406425016033 Cupin domain; Region: Cupin_2; cl09118 406425016034 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 406425016035 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 406425016036 hypothetical protein; Provisional; Region: PRK07481 406425016037 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425016038 inhibitor-cofactor binding pocket; inhibition site 406425016039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425016040 catalytic residue [active] 406425016041 Cupin domain; Region: Cupin_2; cl09118 406425016042 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425016043 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016044 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425016045 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016046 DNA binding residues [nucleotide binding] 406425016047 dimerization interface [polypeptide binding]; other site 406425016048 2-isopropylmalate synthase; Validated; Region: PRK03739 406425016049 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 406425016050 active site 406425016051 catalytic residues [active] 406425016052 metal binding site [ion binding]; metal-binding site 406425016053 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 406425016054 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 406425016055 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 406425016056 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 406425016057 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 406425016058 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425016059 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425016060 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 406425016061 putative active site [active] 406425016062 catalytic triad [active] 406425016063 putative dimer interface [polypeptide binding]; other site 406425016064 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 406425016065 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 406425016066 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 406425016067 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 406425016068 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425016069 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 406425016070 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425016071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016072 Predicted dehydrogenase [General function prediction only]; Region: COG0579 406425016073 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 406425016074 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425016075 ATP binding site [chemical binding]; other site 406425016076 Mg++ binding site [ion binding]; other site 406425016077 motif III; other site 406425016078 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425016079 nucleotide binding region [chemical binding]; other site 406425016080 ATP-binding site [chemical binding]; other site 406425016081 DbpA RNA binding domain; Region: DbpA; pfam03880 406425016082 NMT1-like family; Region: NMT1_2; cl15260 406425016083 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 406425016084 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425016085 putative di-iron ligands [ion binding]; other site 406425016086 benzoate transporter; Region: benE; TIGR00843 406425016087 Benzoate membrane transport protein; Region: BenE; pfam03594 406425016088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016089 NAD(P) binding site [chemical binding]; other site 406425016090 active site 406425016091 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425016092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016093 Helix-turn-helix domains; Region: HTH; cl00088 406425016094 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 406425016095 putative dimerization interface [polypeptide binding]; other site 406425016096 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 406425016097 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425016098 pyrophosphatase PpaX; Provisional; Region: PRK13288 406425016099 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 406425016100 YcxB-like protein; Region: YcxB; pfam14317 406425016101 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 406425016102 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 406425016103 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425016104 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 406425016105 DNA polymerase II; Reviewed; Region: PRK05762 406425016106 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 406425016107 active site 406425016108 catalytic site [active] 406425016109 substrate binding site [chemical binding]; other site 406425016110 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 406425016111 active site 406425016112 metal-binding site 406425016113 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425016114 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 406425016115 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 406425016116 Helix-turn-helix domains; Region: HTH; cl00088 406425016117 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 406425016118 substrate binding pocket [chemical binding]; other site 406425016119 dimerization interface [polypeptide binding]; other site 406425016120 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425016121 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425016122 active site 406425016123 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425016124 classical (c) SDRs; Region: SDR_c; cd05233 406425016125 NAD(P) binding site [chemical binding]; other site 406425016126 active site 406425016127 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425016128 classical (c) SDRs; Region: SDR_c; cd05233 406425016129 NAD(P) binding site [chemical binding]; other site 406425016130 active site 406425016131 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 406425016132 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 406425016133 putative active site [active] 406425016134 putative substrate binding site [chemical binding]; other site 406425016135 ATP binding site [chemical binding]; other site 406425016136 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 406425016137 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 406425016138 catalytic core [active] 406425016139 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 406425016140 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 406425016141 BON domain; Region: BON; cl02771 406425016142 transcriptional regulator; Provisional; Region: PRK10632 406425016143 Helix-turn-helix domains; Region: HTH; cl00088 406425016144 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016145 putative effector binding pocket; other site 406425016146 dimerization interface [polypeptide binding]; other site 406425016147 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 406425016148 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 406425016149 NAD(P) binding site [chemical binding]; other site 406425016150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016151 Helix-turn-helix domains; Region: HTH; cl00088 406425016152 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016153 dimerization interface [polypeptide binding]; other site 406425016154 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 406425016155 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016156 DNA binding residues [nucleotide binding] 406425016157 dimerization interface [polypeptide binding]; other site 406425016158 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 406425016159 AMP-binding enzyme; Region: AMP-binding; cl15778 406425016160 AMP-binding enzyme; Region: AMP-binding; cl15778 406425016161 chaperone protein HchA; Provisional; Region: PRK04155 406425016162 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 406425016163 conserved cys residue [active] 406425016164 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425016165 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425016166 active site 406425016167 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425016168 Helix-turn-helix domains; Region: HTH; cl00088 406425016169 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 406425016170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016171 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425016172 lipid-transfer protein; Provisional; Region: PRK08256 406425016173 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 406425016174 active site 406425016175 acyl-CoA synthetase; Validated; Region: PRK06188 406425016176 AMP-binding enzyme; Region: AMP-binding; cl15778 406425016177 AMP-binding enzyme; Region: AMP-binding; cl15778 406425016178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016179 NAD(P) binding site [chemical binding]; other site 406425016180 Cytochrome c; Region: Cytochrom_C; cl11414 406425016181 Cytochrome c; Region: Cytochrom_C; cl11414 406425016182 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 406425016183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016184 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 406425016185 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 406425016186 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 406425016187 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 406425016188 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 406425016189 homotrimer interaction site [polypeptide binding]; other site 406425016190 putative active site [active] 406425016191 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425016192 Cytochrome c; Region: Cytochrom_C; cl11414 406425016193 Cytochrome c; Region: Cytochrom_C; cl11414 406425016194 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 406425016195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016196 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425016197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016198 active site 406425016199 phosphorylation site [posttranslational modification] 406425016200 intermolecular recognition site; other site 406425016201 dimerization interface [polypeptide binding]; other site 406425016202 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425016203 DNA binding site [nucleotide binding] 406425016204 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425016205 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016206 dimer interface [polypeptide binding]; other site 406425016207 phosphorylation site [posttranslational modification] 406425016208 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016209 Mg2+ binding site [ion binding]; other site 406425016210 G-X-G motif; other site 406425016211 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016212 putative substrate translocation pore; other site 406425016213 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425016214 Helix-turn-helix domains; Region: HTH; cl00088 406425016215 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016216 dimerization interface [polypeptide binding]; other site 406425016217 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 406425016218 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 406425016219 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425016220 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 406425016221 putative active site pocket [active] 406425016222 putative metal binding site [ion binding]; other site 406425016223 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425016224 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425016225 inhibitor site; inhibition site 406425016226 active site 406425016227 dimer interface [polypeptide binding]; other site 406425016228 catalytic residue [active] 406425016229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016230 D-galactonate transporter; Region: 2A0114; TIGR00893 406425016231 putative substrate translocation pore; other site 406425016232 Uncharacterized conserved protein [Function unknown]; Region: COG3391 406425016233 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 406425016234 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425016235 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425016236 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425016237 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016238 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 406425016239 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425016240 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425016241 dimer interface [polypeptide binding]; other site 406425016242 conserved gate region; other site 406425016243 putative PBP binding loops; other site 406425016244 ABC-ATPase subunit interface; other site 406425016245 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425016246 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 406425016247 inhibitor binding site; inhibition site 406425016248 catalytic Zn binding site [ion binding]; other site 406425016249 structural Zn binding site [ion binding]; other site 406425016250 NADP binding site [chemical binding]; other site 406425016251 tetramer interface [polypeptide binding]; other site 406425016252 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 406425016253 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 406425016254 Walker A/P-loop; other site 406425016255 ATP binding site [chemical binding]; other site 406425016256 Q-loop/lid; other site 406425016257 ABC transporter signature motif; other site 406425016258 Walker B; other site 406425016259 D-loop; other site 406425016260 H-loop/switch region; other site 406425016261 Cupin domain; Region: Cupin_2; cl09118 406425016262 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425016263 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 406425016264 N- and C-terminal domain interface [polypeptide binding]; other site 406425016265 active site 406425016266 catalytic site [active] 406425016267 metal binding site [ion binding]; metal-binding site 406425016268 xylulose binding site [chemical binding]; other site 406425016269 putative ATP binding site [chemical binding]; other site 406425016270 homodimer interface [polypeptide binding]; other site 406425016271 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 406425016272 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425016273 DNA binding residues [nucleotide binding] 406425016274 dimer interface [polypeptide binding]; other site 406425016275 Esterase/lipase [General function prediction only]; Region: COG1647 406425016276 MASE1; Region: MASE1; pfam05231 406425016277 PAS fold; Region: PAS_3; pfam08447 406425016278 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425016279 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425016280 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 406425016281 SurA N-terminal domain; Region: SurA_N_3; cl07813 406425016282 PPIC-type PPIASE domain; Region: Rotamase; cl08278 406425016283 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425016284 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425016285 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425016286 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425016287 Helix-turn-helix domains; Region: HTH; cl00088 406425016288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425016289 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425016290 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 406425016291 putative active site [active] 406425016292 putative metal binding site [ion binding]; other site 406425016293 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 406425016294 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 406425016295 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425016296 AMP-binding domain protein; Validated; Region: PRK07529 406425016297 AMP-binding enzyme; Region: AMP-binding; cl15778 406425016298 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425016299 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425016300 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 406425016301 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 406425016302 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 406425016303 putative active site [active] 406425016304 putative metal binding site [ion binding]; other site 406425016305 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 406425016306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425016308 Helix-turn-helix domains; Region: HTH; cl00088 406425016309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016310 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425016311 putative substrate translocation pore; other site 406425016312 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 406425016313 rRNA binding site [nucleotide binding]; other site 406425016314 predicted 30S ribosome binding site; other site 406425016315 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 406425016316 DNA-binding site [nucleotide binding]; DNA binding site 406425016317 RNA-binding motif; other site 406425016318 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 406425016319 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 406425016320 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 406425016321 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425016322 ligand binding site [chemical binding]; other site 406425016323 flexible hinge region; other site 406425016324 Helix-turn-helix domains; Region: HTH; cl00088 406425016325 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 406425016326 NADPH bind site [chemical binding]; other site 406425016327 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 406425016328 putative FMN binding site [chemical binding]; other site 406425016329 NADPH bind site [chemical binding]; other site 406425016330 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425016331 Helix-turn-helix domains; Region: HTH; cl00088 406425016332 HTH-like domain; Region: HTH_21; pfam13276 406425016333 Integrase core domain; Region: rve; cl01316 406425016334 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425016335 Helix-turn-helix domains; Region: HTH; cl00088 406425016336 Integrase core domain; Region: rve; cl01316 406425016337 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 406425016338 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016339 D-galactonate transporter; Region: 2A0114; TIGR00893 406425016340 putative substrate translocation pore; other site 406425016341 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 406425016342 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425016343 active site pocket [active] 406425016344 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 406425016345 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425016346 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425016347 classical (c) SDRs; Region: SDR_c; cd05233 406425016348 NAD(P) binding site [chemical binding]; other site 406425016349 active site 406425016350 OsmC-like protein; Region: OsmC; cl00767 406425016351 Helix-turn-helix domains; Region: HTH; cl00088 406425016352 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425016353 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 406425016354 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 406425016355 catalytic residues [active] 406425016356 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425016357 FMN binding site [chemical binding]; other site 406425016358 active site 406425016359 substrate binding site [chemical binding]; other site 406425016360 catalytic residue [active] 406425016361 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 406425016362 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425016363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425016364 homodimer interface [polypeptide binding]; other site 406425016365 catalytic residue [active] 406425016366 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425016367 Helix-turn-helix domains; Region: HTH; cl00088 406425016368 putative transposase OrfB; Reviewed; Region: PHA02517 406425016369 HTH-like domain; Region: HTH_21; pfam13276 406425016370 Integrase core domain; Region: rve; cl01316 406425016371 Integrase core domain; Region: rve_3; cl15866 406425016372 Helix-turn-helix domains; Region: HTH; cl00088 406425016373 putative transposase OrfB; Reviewed; Region: PHA02517 406425016374 HTH-like domain; Region: HTH_21; pfam13276 406425016375 Integrase core domain; Region: rve; cl01316 406425016376 Integrase core domain; Region: rve_3; cl15866 406425016377 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425016378 Helix-turn-helix domains; Region: HTH; cl00088 406425016379 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425016380 dimerization interface [polypeptide binding]; other site 406425016381 substrate binding pocket [chemical binding]; other site 406425016382 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 406425016383 EamA-like transporter family; Region: EamA; cl01037 406425016384 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 406425016385 NmrA-like family; Region: NmrA; pfam05368 406425016386 NADP binding site [chemical binding]; other site 406425016387 active site 406425016388 regulatory binding site [polypeptide binding]; other site 406425016389 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425016390 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425016391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016392 Helix-turn-helix domains; Region: HTH; cl00088 406425016393 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016394 dimerization interface [polypeptide binding]; other site 406425016395 Transposase, Mutator family; Region: Transposase_mut; pfam00872 406425016396 MULE transposase domain; Region: MULE; pfam10551 406425016397 Clostripain family; Region: Peptidase_C11; cl04055 406425016398 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 406425016399 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 406425016400 putative active site [active] 406425016401 putative metal binding site [ion binding]; other site 406425016402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 406425016403 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 406425016404 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425016405 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425016406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016407 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425016408 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 406425016409 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 406425016410 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 406425016411 active site 406425016412 catalytic triad [active] 406425016413 calcium binding site 1 [ion binding]; other site 406425016414 calcium binding site 2 [ion binding]; other site 406425016415 calcium binding site 3 [ion binding]; other site 406425016416 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 406425016417 catalytic residues [active] 406425016418 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 406425016419 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 406425016420 Helix-turn-helix domains; Region: HTH; cl00088 406425016421 Integrase core domain; Region: rve; cl01316 406425016422 Helix-turn-helix domains; Region: HTH; cl00088 406425016423 LysE type translocator; Region: LysE; cl00565 406425016424 benzoate transport; Region: 2A0115; TIGR00895 406425016425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016426 putative substrate translocation pore; other site 406425016427 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425016428 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 406425016429 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 406425016430 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 406425016431 tetramer interface [polypeptide binding]; other site 406425016432 active site 406425016433 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425016434 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425016435 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 406425016436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016438 Helix-turn-helix domains; Region: HTH; cl00088 406425016439 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 406425016440 substrate binding pocket [chemical binding]; other site 406425016441 dimerization interface [polypeptide binding]; other site 406425016442 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 406425016443 GTP cyclohydrolase I; Provisional; Region: PLN03044 406425016444 active site 406425016445 pteridine reductase; Provisional; Region: PRK09135 406425016446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016447 NAD(P) binding site [chemical binding]; other site 406425016448 active site 406425016449 serine O-acetyltransferase; Region: cysE; TIGR01172 406425016450 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 406425016451 trimer interface [polypeptide binding]; other site 406425016452 active site 406425016453 substrate binding site [chemical binding]; other site 406425016454 CoA binding site [chemical binding]; other site 406425016455 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 406425016456 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425016457 Ligand Binding Site [chemical binding]; other site 406425016458 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 406425016459 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425016460 ligand binding site [chemical binding]; other site 406425016461 flexible hinge region; other site 406425016462 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 406425016463 putative switch regulator; other site 406425016464 non-specific DNA interactions [nucleotide binding]; other site 406425016465 DNA binding site [nucleotide binding] 406425016466 sequence specific DNA binding site [nucleotide binding]; other site 406425016467 putative cAMP binding site [chemical binding]; other site 406425016468 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 406425016469 Helix-turn-helix domains; Region: HTH; cl00088 406425016470 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016471 dimerization interface [polypeptide binding]; other site 406425016472 LysE type translocator; Region: LysE; cl00565 406425016473 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 406425016474 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 406425016475 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 406425016476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425016477 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425016478 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425016479 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425016480 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425016481 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425016482 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425016483 active site 406425016484 catalytic tetrad [active] 406425016485 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 406425016486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016487 Cupin domain; Region: Cupin_2; cl09118 406425016488 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016489 D-galactonate transporter; Region: 2A0114; TIGR00893 406425016490 putative substrate translocation pore; other site 406425016491 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425016492 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 406425016493 putative NAD(P) binding site [chemical binding]; other site 406425016494 catalytic Zn binding site [ion binding]; other site 406425016495 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425016496 classical (c) SDRs; Region: SDR_c; cd05233 406425016497 NAD(P) binding site [chemical binding]; other site 406425016498 active site 406425016499 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425016500 trimer interface [polypeptide binding]; other site 406425016501 eyelet of channel; other site 406425016502 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425016503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425016504 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 406425016505 choline dehydrogenase; Validated; Region: PRK02106 406425016506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016507 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425016508 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425016509 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425016510 NAD(P) binding site [chemical binding]; other site 406425016511 catalytic residues [active] 406425016512 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 406425016513 YcaO-like family; Region: YcaO; pfam02624 406425016514 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 406425016515 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 406425016516 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 406425016517 Catalytic domain of Protein Kinases; Region: PKc; cd00180 406425016518 active site 406425016519 ATP binding site [chemical binding]; other site 406425016520 substrate binding site [chemical binding]; other site 406425016521 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 406425016522 activation loop (A-loop); other site 406425016523 cyclase homology domain; Region: CHD; cd07302 406425016524 nucleotidyl binding site; other site 406425016525 metal binding site [ion binding]; metal-binding site 406425016526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425016527 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 406425016528 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 406425016529 phosphopeptide binding site; other site 406425016530 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 406425016531 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425016532 putative di-iron ligands [ion binding]; other site 406425016533 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 406425016534 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425016535 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425016536 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 406425016537 Fatty acid desaturase; Region: FA_desaturase; pfam00487 406425016538 putative di-iron ligands [ion binding]; other site 406425016539 GH3 auxin-responsive promoter; Region: GH3; cl04006 406425016540 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425016541 [2Fe-2S] cluster binding site [ion binding]; other site 406425016542 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425016543 hydrophobic ligand binding site; other site 406425016544 PAAR motif; Region: PAAR_motif; cl15808 406425016545 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 406425016546 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 406425016547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 406425016548 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425016549 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425016550 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 406425016551 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 406425016552 Helix-turn-helix domains; Region: HTH; cl00088 406425016553 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 406425016554 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 406425016555 FAD binding pocket [chemical binding]; other site 406425016556 FAD binding motif [chemical binding]; other site 406425016557 phosphate binding motif [ion binding]; other site 406425016558 NAD binding pocket [chemical binding]; other site 406425016559 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 406425016560 active site 406425016561 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 406425016562 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 406425016563 classical (c) SDRs; Region: SDR_c; cd05233 406425016564 NAD(P) binding site [chemical binding]; other site 406425016565 active site 406425016566 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 406425016567 nucleophile elbow; other site 406425016568 Patatin phospholipase; Region: DUF3734; pfam12536 406425016569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016570 Helix-turn-helix domains; Region: HTH; cl00088 406425016571 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425016572 dimerization interface [polypeptide binding]; other site 406425016573 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 406425016574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016575 transcriptional activator TtdR; Provisional; Region: PRK09801 406425016576 Helix-turn-helix domains; Region: HTH; cl00088 406425016577 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 406425016578 putative effector binding pocket; other site 406425016579 putative dimerization interface [polypeptide binding]; other site 406425016580 tartrate dehydrogenase; Provisional; Region: PRK08194 406425016581 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 406425016582 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 406425016583 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425016584 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425016585 Helix-turn-helix domains; Region: HTH; cl00088 406425016586 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 406425016587 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 406425016588 NAD(P) binding site [chemical binding]; other site 406425016589 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 406425016590 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 406425016591 substrate-cofactor binding pocket; other site 406425016592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425016593 catalytic residue [active] 406425016594 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425016595 non-specific DNA binding site [nucleotide binding]; other site 406425016596 salt bridge; other site 406425016597 sequence-specific DNA binding site [nucleotide binding]; other site 406425016598 Cupin domain; Region: Cupin_2; cl09118 406425016599 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 406425016600 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 406425016601 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 406425016602 active site 406425016603 catalytic residues [active] 406425016604 Int/Topo IB signature motif; other site 406425016605 DNA binding site [nucleotide binding] 406425016606 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 406425016607 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 406425016608 Initiator Replication protein; Region: Rep_3; cl03080 406425016609 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 406425016610 ParB-like nuclease domain; Region: ParBc; cl02129 406425016611 ParA-like protein; Provisional; Region: PHA02518 406425016612 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 406425016613 P-loop; other site 406425016614 Magnesium ion binding site [ion binding]; other site 406425016615 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 406425016616 ArsC family; Region: ArsC; pfam03960 406425016617 catalytic residues [active] 406425016618 Putative zinc-finger; Region: zf-HC2; cl15806 406425016619 RNA polymerase sigma factor; Provisional; Region: PRK12545 406425016620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425016621 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425016622 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425016623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425016624 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016625 dimer interface [polypeptide binding]; other site 406425016626 phosphorylation site [posttranslational modification] 406425016627 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016628 ATP binding site [chemical binding]; other site 406425016629 Mg2+ binding site [ion binding]; other site 406425016630 G-X-G motif; other site 406425016631 Response regulator receiver domain; Region: Response_reg; pfam00072 406425016632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016633 active site 406425016634 phosphorylation site [posttranslational modification] 406425016635 intermolecular recognition site; other site 406425016636 dimerization interface [polypeptide binding]; other site 406425016637 Response regulator receiver domain; Region: Response_reg; pfam00072 406425016638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016639 active site 406425016640 phosphorylation site [posttranslational modification] 406425016641 intermolecular recognition site; other site 406425016642 dimerization interface [polypeptide binding]; other site 406425016643 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 406425016644 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425016645 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 406425016646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425016647 metal binding site [ion binding]; metal-binding site 406425016648 active site 406425016649 I-site; other site 406425016650 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425016651 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425016652 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 406425016653 active site lid residues [active] 406425016654 substrate binding pocket [chemical binding]; other site 406425016655 catalytic residues [active] 406425016656 substrate-Mg2+ binding site; other site 406425016657 aspartate-rich region 1; other site 406425016658 aspartate-rich region 2; other site 406425016659 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 406425016660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016661 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 406425016662 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 406425016663 Active site cavity [active] 406425016664 catalytic acid [active] 406425016665 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 406425016666 VacJ like lipoprotein; Region: VacJ; cl01073 406425016667 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 406425016668 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 406425016669 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425016670 Helix-turn-helix domains; Region: HTH; cl00088 406425016671 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425016672 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016673 putative substrate translocation pore; other site 406425016674 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425016675 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016676 active site 406425016677 phosphorylation site [posttranslational modification] 406425016678 intermolecular recognition site; other site 406425016679 dimerization interface [polypeptide binding]; other site 406425016680 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016681 DNA binding residues [nucleotide binding] 406425016682 dimerization interface [polypeptide binding]; other site 406425016683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 406425016684 Cache domain; Region: Cache_2; cl07034 406425016685 Histidine kinase; Region: HisKA_3; pfam07730 406425016686 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016687 ATP binding site [chemical binding]; other site 406425016688 Mg2+ binding site [ion binding]; other site 406425016689 G-X-G motif; other site 406425016690 Cache domain; Region: Cache_1; pfam02743 406425016691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425016692 metal binding site [ion binding]; metal-binding site 406425016693 active site 406425016694 I-site; other site 406425016695 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 406425016696 active site 406425016697 Domain of unknown function (DUF336); Region: DUF336; cl01249 406425016698 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 406425016699 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 406425016700 ATP binding site [chemical binding]; other site 406425016701 Mg++ binding site [ion binding]; other site 406425016702 motif III; other site 406425016703 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 406425016704 nucleotide binding region [chemical binding]; other site 406425016705 ATP-binding site [chemical binding]; other site 406425016706 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425016707 Helix-turn-helix domains; Region: HTH; cl00088 406425016708 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425016709 dimerization interface [polypeptide binding]; other site 406425016710 substrate binding pocket [chemical binding]; other site 406425016711 Helix-turn-helix domains; Region: HTH; cl00088 406425016712 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 406425016713 NmrA-like family; Region: NmrA; pfam05368 406425016714 NAD(P) binding site [chemical binding]; other site 406425016715 active site lysine 406425016716 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 406425016717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425016718 dimer interface [polypeptide binding]; other site 406425016719 conserved gate region; other site 406425016720 putative PBP binding loops; other site 406425016721 ABC-ATPase subunit interface; other site 406425016722 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425016723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425016724 dimer interface [polypeptide binding]; other site 406425016725 putative PBP binding loops; other site 406425016726 ABC-ATPase subunit interface; other site 406425016727 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 406425016728 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016729 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 406425016730 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 406425016731 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 406425016732 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 406425016733 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 406425016734 Walker A/P-loop; other site 406425016735 ATP binding site [chemical binding]; other site 406425016736 Q-loop/lid; other site 406425016737 ABC transporter signature motif; other site 406425016738 Walker B; other site 406425016739 D-loop; other site 406425016740 H-loop/switch region; other site 406425016741 TOBE domain; Region: TOBE_2; cl01440 406425016742 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425016743 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425016744 DNA binding site [nucleotide binding] 406425016745 domain linker motif; other site 406425016746 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 406425016747 dimerization interface [polypeptide binding]; other site 406425016748 ligand binding site [chemical binding]; other site 406425016749 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425016750 Helix-turn-helix domains; Region: HTH; cl00088 406425016751 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425016752 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425016753 DNA-binding site [nucleotide binding]; DNA binding site 406425016754 FCD domain; Region: FCD; cl11656 406425016755 OsmC-like protein; Region: OsmC; cl00767 406425016756 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 406425016757 Helix-turn-helix domains; Region: HTH; cl00088 406425016758 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016759 dimerization interface [polypeptide binding]; other site 406425016760 Dehydratase family; Region: ILVD_EDD; cl00340 406425016761 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425016762 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425016763 inhibitor site; inhibition site 406425016764 active site 406425016765 dimer interface [polypeptide binding]; other site 406425016766 catalytic residue [active] 406425016767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016768 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 406425016769 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 406425016770 ligand binding site [chemical binding]; other site 406425016771 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 406425016772 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425016773 Walker A/P-loop; other site 406425016774 ATP binding site [chemical binding]; other site 406425016775 Q-loop/lid; other site 406425016776 ABC transporter signature motif; other site 406425016777 Walker B; other site 406425016778 D-loop; other site 406425016779 H-loop/switch region; other site 406425016780 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425016781 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425016782 TM-ABC transporter signature motif; other site 406425016783 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425016784 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425016785 Helix-turn-helix domains; Region: HTH; cl00088 406425016786 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 406425016787 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425016788 substrate binding site [chemical binding]; other site 406425016789 oxyanion hole (OAH) forming residues; other site 406425016790 trimer interface [polypeptide binding]; other site 406425016791 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425016792 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 406425016793 NAD(P) binding site [chemical binding]; other site 406425016794 catalytic residues [active] 406425016795 feruloyl-CoA synthase; Reviewed; Region: PRK08180 406425016796 AMP-binding enzyme; Region: AMP-binding; cl15778 406425016797 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 406425016798 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425016799 putative substrate translocation pore; other site 406425016800 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425016801 trimer interface [polypeptide binding]; other site 406425016802 eyelet of channel; other site 406425016803 Tannase and feruloyl esterase; Region: Tannase; pfam07519 406425016804 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425016805 Helix-turn-helix domains; Region: HTH; cl00088 406425016806 AsnC family; Region: AsnC_trans_reg; pfam01037 406425016807 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 406425016808 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425016809 catalytic residue [active] 406425016810 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425016811 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425016812 metal binding site [ion binding]; metal-binding site 406425016813 putative dimer interface [polypeptide binding]; other site 406425016814 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 406425016815 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 406425016816 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 406425016817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425016818 Coenzyme A binding pocket [chemical binding]; other site 406425016819 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 406425016820 cytosine deaminase; Provisional; Region: PRK05985 406425016821 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 406425016822 active site 406425016823 cytosine deaminase; Provisional; Region: PRK05985 406425016824 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 406425016825 active site 406425016826 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425016827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016828 Helix-turn-helix domains; Region: HTH; cl00088 406425016829 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425016830 dimerization interface [polypeptide binding]; other site 406425016831 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 406425016832 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425016833 substrate binding pocket [chemical binding]; other site 406425016834 membrane-bound complex binding site; other site 406425016835 hinge residues; other site 406425016836 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425016837 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 406425016838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425016839 DNA-binding site [nucleotide binding]; DNA binding site 406425016840 UTRA domain; Region: UTRA; cl01230 406425016841 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425016842 non-specific DNA binding site [nucleotide binding]; other site 406425016843 salt bridge; other site 406425016844 sequence-specific DNA binding site [nucleotide binding]; other site 406425016845 Cupin domain; Region: Cupin_2; cl09118 406425016846 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 406425016847 intersubunit interface [polypeptide binding]; other site 406425016848 active site 406425016849 Zn2+ binding site [ion binding]; other site 406425016850 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425016851 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 406425016852 inhibitor site; inhibition site 406425016853 active site 406425016854 dimer interface [polypeptide binding]; other site 406425016855 catalytic residue [active] 406425016856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 406425016857 MOSC domain; Region: MOSC; pfam03473 406425016858 3-alpha domain; Region: 3-alpha; pfam03475 406425016859 short chain dehydrogenase; Provisional; Region: PRK07023 406425016860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016861 NAD(P) binding site [chemical binding]; other site 406425016862 active site 406425016863 hypothetical protein; Provisional; Region: PRK11239 406425016864 Protein of unknown function, DUF480; Region: DUF480; cl01209 406425016865 Secretory lipase; Region: LIP; pfam03583 406425016866 NeuB family; Region: NeuB; cl00496 406425016867 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 406425016868 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 406425016869 OsmC-like protein; Region: OsmC; cl00767 406425016870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425016871 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425016872 NAD(P) binding site [chemical binding]; other site 406425016873 active site 406425016874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425016875 Helix-turn-helix domains; Region: HTH; cl00088 406425016876 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425016877 putative effector binding pocket; other site 406425016878 dimerization interface [polypeptide binding]; other site 406425016879 Cupin domain; Region: Cupin_2; cl09118 406425016880 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425016881 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 406425016882 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425016883 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425016884 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 406425016885 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425016886 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 406425016887 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425016888 AAA domain; Region: AAA_22; pfam13401 406425016889 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425016890 Haemagglutinin; Region: HIM; pfam05662 406425016891 YadA-like C-terminal region; Region: YadA; pfam03895 406425016892 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 406425016893 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425016894 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425016895 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425016896 substrate binding pocket [chemical binding]; other site 406425016897 membrane-bound complex binding site; other site 406425016898 hinge residues; other site 406425016899 PAS fold; Region: PAS_4; pfam08448 406425016900 hypothetical protein; Provisional; Region: PRK13560 406425016901 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016902 dimer interface [polypeptide binding]; other site 406425016903 phosphorylation site [posttranslational modification] 406425016904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016905 ATP binding site [chemical binding]; other site 406425016906 Mg2+ binding site [ion binding]; other site 406425016907 G-X-G motif; other site 406425016908 Response regulator receiver domain; Region: Response_reg; pfam00072 406425016909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016910 active site 406425016911 phosphorylation site [posttranslational modification] 406425016912 intermolecular recognition site; other site 406425016913 dimerization interface [polypeptide binding]; other site 406425016914 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425016915 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016916 active site 406425016917 phosphorylation site [posttranslational modification] 406425016918 intermolecular recognition site; other site 406425016919 dimerization interface [polypeptide binding]; other site 406425016920 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425016921 DNA binding residues [nucleotide binding] 406425016922 dimerization interface [polypeptide binding]; other site 406425016923 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 406425016924 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 406425016925 FHIPEP family; Region: FHIPEP; pfam00771 406425016926 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 406425016927 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 406425016928 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 406425016929 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 406425016930 FliP family; Region: FliP; cl00593 406425016931 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425016932 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 406425016933 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425016934 flagellin; Reviewed; Region: PRK08869 406425016935 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425016936 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 406425016937 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425016938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425016939 active site 406425016940 phosphorylation site [posttranslational modification] 406425016941 intermolecular recognition site; other site 406425016942 dimerization interface [polypeptide binding]; other site 406425016943 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425016944 DNA binding site [nucleotide binding] 406425016945 CHASE2 domain; Region: CHASE2; cl01732 406425016946 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425016947 dimer interface [polypeptide binding]; other site 406425016948 phosphorylation site [posttranslational modification] 406425016949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425016950 ATP binding site [chemical binding]; other site 406425016951 Mg2+ binding site [ion binding]; other site 406425016952 G-X-G motif; other site 406425016953 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 406425016954 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 406425016955 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 406425016956 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 406425016957 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 406425016958 FliG C-terminal domain; Region: FliG_C; pfam01706 406425016959 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 406425016960 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425016961 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 406425016962 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 406425016963 Walker A motif/ATP binding site; other site 406425016964 Walker B motif; other site 406425016965 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 406425016966 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 406425016967 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 406425016968 Flagellar protein FliS; Region: FliS; cl00654 406425016969 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 406425016970 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 406425016971 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425016972 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425016973 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425016974 DNA binding residues [nucleotide binding] 406425016975 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 406425016976 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 406425016977 hypothetical protein; Validated; Region: PRK06778 406425016978 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 406425016979 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425016980 ligand binding site [chemical binding]; other site 406425016981 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 406425016982 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 406425016983 SAF-like; Region: SAF_2; pfam13144 406425016984 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 406425016985 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425016986 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 406425016987 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 406425016988 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425016989 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425016990 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 406425016991 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 406425016992 FlgD Ig-like domain; Region: FlgD_ig; cl15790 406425016993 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 406425016994 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 406425016995 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425016996 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 406425016997 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425016998 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425016999 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 406425017000 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 406425017001 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425017002 Flagellar L-ring protein; Region: FlgH; cl00905 406425017003 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 406425017004 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 406425017005 Rod binding protein; Region: Rod-binding; cl01626 406425017006 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 406425017007 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 406425017008 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 406425017009 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 406425017010 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 406425017011 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 406425017012 putative fimbrial protein TcfA; Provisional; Region: PRK15308 406425017013 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017015 active site 406425017016 phosphorylation site [posttranslational modification] 406425017017 intermolecular recognition site; other site 406425017018 dimerization interface [polypeptide binding]; other site 406425017019 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017020 dimerization interface [polypeptide binding]; other site 406425017021 DNA binding residues [nucleotide binding] 406425017022 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 406425017023 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017024 dimer interface [polypeptide binding]; other site 406425017025 phosphorylation site [posttranslational modification] 406425017026 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017027 ATP binding site [chemical binding]; other site 406425017028 Mg2+ binding site [ion binding]; other site 406425017029 G-X-G motif; other site 406425017030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017031 active site 406425017032 phosphorylation site [posttranslational modification] 406425017033 intermolecular recognition site; other site 406425017034 dimerization interface [polypeptide binding]; other site 406425017035 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425017036 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017038 active site 406425017039 phosphorylation site [posttranslational modification] 406425017040 intermolecular recognition site; other site 406425017041 dimerization interface [polypeptide binding]; other site 406425017042 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017043 DNA binding residues [nucleotide binding] 406425017044 dimerization interface [polypeptide binding]; other site 406425017045 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425017046 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425017047 substrate binding pocket [chemical binding]; other site 406425017048 membrane-bound complex binding site; other site 406425017049 hinge residues; other site 406425017050 PAS fold; Region: PAS_4; pfam08448 406425017051 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425017052 putative active site [active] 406425017053 heme pocket [chemical binding]; other site 406425017054 PAS fold; Region: PAS_3; pfam08447 406425017055 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017056 dimer interface [polypeptide binding]; other site 406425017057 phosphorylation site [posttranslational modification] 406425017058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017059 ATP binding site [chemical binding]; other site 406425017060 Mg2+ binding site [ion binding]; other site 406425017061 G-X-G motif; other site 406425017062 Response regulator receiver domain; Region: Response_reg; pfam00072 406425017063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017064 active site 406425017065 phosphorylation site [posttranslational modification] 406425017066 intermolecular recognition site; other site 406425017067 dimerization interface [polypeptide binding]; other site 406425017068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425017069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017070 active site 406425017071 phosphorylation site [posttranslational modification] 406425017072 intermolecular recognition site; other site 406425017073 dimerization interface [polypeptide binding]; other site 406425017074 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425017075 DNA binding residues [nucleotide binding] 406425017076 dimerization interface [polypeptide binding]; other site 406425017077 Haemagglutinin; Region: HIM; pfam05662 406425017078 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 406425017079 YadA-like C-terminal region; Region: YadA; pfam03895 406425017080 Phage integrase protein; Region: DUF3701; pfam12482 406425017081 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 406425017082 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 406425017083 Int/Topo IB signature motif; other site 406425017084 Helix-turn-helix domains; Region: HTH; cl00088 406425017085 putative transposase OrfB; Reviewed; Region: PHA02517 406425017086 HTH-like domain; Region: HTH_21; pfam13276 406425017087 Integrase core domain; Region: rve; cl01316 406425017088 Integrase core domain; Region: rve_3; cl15866 406425017089 carbon starvation protein A; Provisional; Region: PRK15015 406425017090 Carbon starvation protein CstA; Region: CstA; pfam02554 406425017091 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 406425017092 Protein of unknown function (DUF466); Region: DUF466; cl01082 406425017093 Haemolysin-III related; Region: HlyIII; cl03831 406425017094 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017095 putative substrate translocation pore; other site 406425017096 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425017097 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 406425017098 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 406425017099 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425017100 FeS/SAM binding site; other site 406425017101 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 406425017102 LytB protein; Region: LYTB; cl00507 406425017103 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 406425017104 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 406425017105 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425017106 active site 406425017107 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 406425017108 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 406425017109 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 406425017110 putative NADP binding site [chemical binding]; other site 406425017111 putative substrate binding site [chemical binding]; other site 406425017112 active site 406425017113 Acylphosphatase; Region: Acylphosphatase; cl00551 406425017114 Predicted permeases [General function prediction only]; Region: RarD; COG2962 406425017115 EamA-like transporter family; Region: EamA; cl01037 406425017116 OpgC protein; Region: OpgC_C; cl00792 406425017117 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 406425017118 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017119 putative substrate translocation pore; other site 406425017120 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 406425017121 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 406425017122 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425017123 non-specific DNA binding site [nucleotide binding]; other site 406425017124 salt bridge; other site 406425017125 sequence-specific DNA binding site [nucleotide binding]; other site 406425017126 Cupin domain; Region: Cupin_2; cl09118 406425017127 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 406425017128 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 406425017129 peptide binding site [polypeptide binding]; other site 406425017130 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 406425017131 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017132 ABC-ATPase subunit interface; other site 406425017133 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 406425017134 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 406425017135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017136 dimer interface [polypeptide binding]; other site 406425017137 conserved gate region; other site 406425017138 putative PBP binding loops; other site 406425017139 ABC-ATPase subunit interface; other site 406425017140 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 406425017141 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425017142 Walker A/P-loop; other site 406425017143 ATP binding site [chemical binding]; other site 406425017144 Q-loop/lid; other site 406425017145 ABC transporter signature motif; other site 406425017146 Walker B; other site 406425017147 D-loop; other site 406425017148 H-loop/switch region; other site 406425017149 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425017150 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 406425017151 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425017152 Walker A/P-loop; other site 406425017153 ATP binding site [chemical binding]; other site 406425017154 Q-loop/lid; other site 406425017155 ABC transporter signature motif; other site 406425017156 Walker B; other site 406425017157 D-loop; other site 406425017158 H-loop/switch region; other site 406425017159 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 406425017160 outer membrane porin, OprD family; Region: OprD; pfam03573 406425017161 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 406425017162 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 406425017163 active site residue [active] 406425017164 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425017165 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425017166 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425017167 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425017168 putative acetyltransferase YhhY; Provisional; Region: PRK10140 406425017169 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425017170 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425017171 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425017172 Citrate transporter; Region: CitMHS; pfam03600 406425017173 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 406425017174 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425017175 Walker B motif; other site 406425017176 arginine finger; other site 406425017177 Helix-turn-helix domains; Region: HTH; cl00088 406425017178 H-NS histone family; Region: Histone_HNS; pfam00816 406425017179 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425017180 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 406425017181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017182 CoA-ligase; Region: Ligase_CoA; cl02894 406425017183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425017184 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425017185 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425017186 Helix-turn-helix domains; Region: HTH; cl00088 406425017187 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425017188 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425017189 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425017190 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 406425017191 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425017192 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 406425017193 CGNR zinc finger; Region: zf-CGNR; pfam11706 406425017194 Propionate catabolism activator; Region: PrpR_N; pfam06506 406425017195 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 406425017196 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425017197 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425017198 Walker A motif; other site 406425017199 ATP binding site [chemical binding]; other site 406425017200 Walker B motif; other site 406425017201 arginine finger; other site 406425017202 Helix-turn-helix domains; Region: HTH; cl00088 406425017203 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 406425017204 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425017205 tetramer interface [polypeptide binding]; other site 406425017206 active site 406425017207 Mg2+/Mn2+ binding site [ion binding]; other site 406425017208 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 406425017209 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 406425017210 dimer interface [polypeptide binding]; other site 406425017211 active site 406425017212 citrylCoA binding site [chemical binding]; other site 406425017213 oxalacetate/citrate binding site [chemical binding]; other site 406425017214 coenzyme A binding site [chemical binding]; other site 406425017215 catalytic triad [active] 406425017216 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 406425017217 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 406425017218 substrate binding site [chemical binding]; other site 406425017219 ligand binding site [chemical binding]; other site 406425017220 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 406425017221 substrate binding site [chemical binding]; other site 406425017222 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 406425017223 PrpF protein; Region: PrpF; pfam04303 406425017224 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425017225 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425017226 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425017227 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425017228 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 406425017229 active site 406425017230 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425017231 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017232 putative substrate translocation pore; other site 406425017233 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425017234 trimer interface [polypeptide binding]; other site 406425017235 eyelet of channel; other site 406425017236 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425017237 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 406425017238 substrate binding site [chemical binding]; other site 406425017239 oxyanion hole (OAH) forming residues; other site 406425017240 trimer interface [polypeptide binding]; other site 406425017241 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425017242 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425017243 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 406425017244 enoyl-CoA hydratase; Provisional; Region: PRK09245 406425017245 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425017246 substrate binding site [chemical binding]; other site 406425017247 oxyanion hole (OAH) forming residues; other site 406425017248 trimer interface [polypeptide binding]; other site 406425017249 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425017250 Helix-turn-helix domains; Region: HTH; cl00088 406425017251 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425017252 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425017253 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 406425017254 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 406425017255 CoenzymeA binding site [chemical binding]; other site 406425017256 subunit interaction site [polypeptide binding]; other site 406425017257 PHB binding site; other site 406425017258 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 406425017259 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425017260 dimer interface [polypeptide binding]; other site 406425017261 ligand binding site [chemical binding]; other site 406425017262 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425017263 dimer interface [polypeptide binding]; other site 406425017264 putative CheW interface [polypeptide binding]; other site 406425017265 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 406425017266 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 406425017267 dimerization interface [polypeptide binding]; other site 406425017268 putative active cleft [active] 406425017269 MgtC family; Region: MgtC; pfam02308 406425017270 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425017271 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425017272 metal-binding site [ion binding] 406425017273 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425017274 metal-binding site [ion binding] 406425017275 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 406425017276 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 406425017277 metal-binding site [ion binding] 406425017278 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425017279 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425017280 Uncharacterized conserved protein [Function unknown]; Region: COG5361 406425017281 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 406425017282 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 406425017283 AsmA family; Region: AsmA; pfam05170 406425017284 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425017285 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425017286 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425017287 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 406425017288 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 406425017289 Sulfatase; Region: Sulfatase; cl10460 406425017290 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 406425017291 Sulfatase; Region: Sulfatase; cl10460 406425017292 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425017293 Helix-turn-helix domains; Region: HTH; cl00088 406425017294 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017295 dimerization interface [polypeptide binding]; other site 406425017296 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017297 dimer interface [polypeptide binding]; other site 406425017298 conserved gate region; other site 406425017299 putative PBP binding loops; other site 406425017300 ABC-ATPase subunit interface; other site 406425017301 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 406425017302 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425017303 Walker A/P-loop; other site 406425017304 ATP binding site [chemical binding]; other site 406425017305 Q-loop/lid; other site 406425017306 ABC transporter signature motif; other site 406425017307 Walker B; other site 406425017308 D-loop; other site 406425017309 H-loop/switch region; other site 406425017310 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 406425017311 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017312 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 406425017313 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017314 dimer interface [polypeptide binding]; other site 406425017315 conserved gate region; other site 406425017316 putative PBP binding loops; other site 406425017317 ABC-ATPase subunit interface; other site 406425017318 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 406425017319 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 406425017320 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 406425017321 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 406425017322 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 406425017323 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 406425017324 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 406425017325 tetramer interface [polypeptide binding]; other site 406425017326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425017327 catalytic residue [active] 406425017328 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 406425017329 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 406425017330 Helix-turn-helix domains; Region: HTH; cl00088 406425017331 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 406425017332 putative dimerization interface [polypeptide binding]; other site 406425017333 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425017334 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 406425017335 active site residue [active] 406425017336 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425017337 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 406425017338 C-terminal domain interface [polypeptide binding]; other site 406425017339 GSH binding site (G-site) [chemical binding]; other site 406425017340 dimer interface [polypeptide binding]; other site 406425017341 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 406425017342 N-terminal domain interface [polypeptide binding]; other site 406425017343 dimer interface [polypeptide binding]; other site 406425017344 substrate binding pocket (H-site) [chemical binding]; other site 406425017345 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 406425017346 active site 406425017347 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017349 Helix-turn-helix domains; Region: HTH; cl00088 406425017350 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425017351 putative effector binding pocket; other site 406425017352 dimerization interface [polypeptide binding]; other site 406425017353 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 406425017354 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 406425017355 putative catalytic residue [active] 406425017356 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 406425017357 Helix-turn-helix domains; Region: HTH; cl00088 406425017358 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425017359 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 406425017360 active site 406425017361 catalytic residues [active] 406425017362 metal binding site [ion binding]; metal-binding site 406425017363 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 406425017364 CoA-transferase family III; Region: CoA_transf_3; pfam02515 406425017365 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425017366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017367 putative substrate translocation pore; other site 406425017368 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425017369 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425017370 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 406425017371 putative hydrophobic ligand binding site [chemical binding]; other site 406425017372 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 406425017373 putative hydrophobic ligand binding site [chemical binding]; other site 406425017374 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425017375 dimerization interface [polypeptide binding]; other site 406425017376 putative DNA binding site [nucleotide binding]; other site 406425017377 putative Zn2+ binding site [ion binding]; other site 406425017378 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425017379 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 406425017380 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017381 Helix-turn-helix domains; Region: HTH; cl00088 406425017382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017383 NAD(P) binding site [chemical binding]; other site 406425017384 active site 406425017385 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 406425017386 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 406425017387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017388 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 406425017389 Predicted transcriptional regulators [Transcription]; Region: COG1510 406425017390 Helix-turn-helix domains; Region: HTH; cl00088 406425017391 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 406425017392 NADH(P)-binding; Region: NAD_binding_10; pfam13460 406425017393 putative NAD(P) binding site [chemical binding]; other site 406425017394 active site 406425017395 DoxX-like family; Region: DoxX_3; pfam13781 406425017396 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 406425017397 Protein of unknown function, DUF393; Region: DUF393; cl01136 406425017398 3,8-divinyl protochlorophyllide a 8-vinyl reductase; Region: PLN02657 406425017399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017400 TIGR01777 family protein; Region: yfcH 406425017401 NAD(P) binding site [chemical binding]; other site 406425017402 active site 406425017403 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 406425017404 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 406425017405 putative C-terminal domain interface [polypeptide binding]; other site 406425017406 putative GSH binding site (G-site) [chemical binding]; other site 406425017407 putative dimer interface [polypeptide binding]; other site 406425017408 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 406425017409 putative N-terminal domain interface [polypeptide binding]; other site 406425017410 putative dimer interface [polypeptide binding]; other site 406425017411 putative substrate binding pocket (H-site) [chemical binding]; other site 406425017412 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425017413 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 406425017414 HIT family signature motif; other site 406425017415 catalytic residue [active] 406425017416 Phospholipid methyltransferase; Region: PEMT; cl00763 406425017417 hypothetical protein; Provisional; Region: PRK11171 406425017418 Cupin domain; Region: Cupin_2; cl09118 406425017419 Cupin domain; Region: Cupin_2; cl09118 406425017420 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017421 Helix-turn-helix domains; Region: HTH; cl00088 406425017422 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 406425017423 putative substrate binding pocket [chemical binding]; other site 406425017424 putative dimerization interface [polypeptide binding]; other site 406425017425 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425017426 Transglycosylase; Region: Transgly; cl07896 406425017427 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 406425017428 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425017429 Predicted membrane protein [Function unknown]; Region: COG2860 406425017430 UPF0126 domain; Region: UPF0126; pfam03458 406425017431 UPF0126 domain; Region: UPF0126; pfam03458 406425017432 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 406425017433 active site 406425017434 metal binding site [ion binding]; metal-binding site 406425017435 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 406425017436 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 406425017437 Walker A/P-loop; other site 406425017438 ATP binding site [chemical binding]; other site 406425017439 Q-loop/lid; other site 406425017440 ABC transporter signature motif; other site 406425017441 Walker B; other site 406425017442 D-loop; other site 406425017443 H-loop/switch region; other site 406425017444 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 406425017445 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 406425017446 putative PBP binding regions; other site 406425017447 ABC-ATPase subunit interface; other site 406425017448 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 406425017449 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 406425017450 intersubunit interface [polypeptide binding]; other site 406425017451 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 406425017452 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 406425017453 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 406425017454 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 406425017455 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425017456 N-terminal plug; other site 406425017457 ligand-binding site [chemical binding]; other site 406425017458 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 406425017459 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425017460 trimer interface [polypeptide binding]; other site 406425017461 eyelet of channel; other site 406425017462 NMT1-like family; Region: NMT1_2; cl15260 406425017463 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 406425017464 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 406425017465 active site 406425017466 Zn binding site [ion binding]; other site 406425017467 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 406425017468 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425017469 substrate binding pocket [chemical binding]; other site 406425017470 membrane-bound complex binding site; other site 406425017471 hinge residues; other site 406425017472 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425017473 Helix-turn-helix domains; Region: HTH; cl00088 406425017474 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425017475 dimerization interface [polypeptide binding]; other site 406425017476 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 406425017477 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425017478 conserved cys residue [active] 406425017479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017481 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 406425017482 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 406425017483 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 406425017484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017485 Helix-turn-helix domains; Region: HTH; cl00088 406425017486 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425017487 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 406425017488 Putative cyclase; Region: Cyclase; cl00814 406425017489 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425017490 FMN binding site [chemical binding]; other site 406425017491 active site 406425017492 substrate binding site [chemical binding]; other site 406425017493 catalytic residue [active] 406425017494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 406425017495 Transposase; Region: DEDD_Tnp_IS110; pfam01548 406425017496 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 406425017497 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425017498 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425017499 active site 406425017500 catalytic tetrad [active] 406425017501 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 406425017502 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425017503 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 406425017504 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017505 putative substrate translocation pore; other site 406425017506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017507 Helix-turn-helix domains; Region: HTH; cl00088 406425017508 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 406425017509 putative effector binding pocket; other site 406425017510 dimerization interface [polypeptide binding]; other site 406425017511 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 406425017512 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 406425017513 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 406425017514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017515 Helix-turn-helix domains; Region: HTH; cl00088 406425017516 short chain dehydrogenase; Provisional; Region: PRK06180 406425017517 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425017518 NADP binding site [chemical binding]; other site 406425017519 active site 406425017520 steroid binding site; other site 406425017521 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017522 Helix-turn-helix domains; Region: HTH; cl00088 406425017523 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425017524 dimerization interface [polypeptide binding]; other site 406425017525 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425017526 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 406425017527 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425017528 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 406425017529 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 406425017530 NADP binding site [chemical binding]; other site 406425017531 dimer interface [polypeptide binding]; other site 406425017532 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425017533 Helix-turn-helix domains; Region: HTH; cl00088 406425017534 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425017535 Helix-turn-helix domains; Region: HTH; cl00088 406425017536 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425017537 hypothetical protein; Validated; Region: PRK06201 406425017538 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 406425017539 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425017540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017541 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425017542 Strictosidine synthase; Region: Str_synth; pfam03088 406425017543 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425017544 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017545 putative substrate translocation pore; other site 406425017546 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425017547 trimer interface [polypeptide binding]; other site 406425017548 eyelet of channel; other site 406425017549 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425017550 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425017551 benzoate transport; Region: 2A0115; TIGR00895 406425017552 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017553 putative substrate translocation pore; other site 406425017554 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425017555 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425017556 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017557 putative substrate translocation pore; other site 406425017558 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425017559 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 406425017560 active site 406425017561 Helix-turn-helix domains; Region: HTH; cl00088 406425017562 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425017563 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 406425017564 putative effector binding pocket; other site 406425017565 putative dimerization interface [polypeptide binding]; other site 406425017566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017567 active site 406425017568 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425017569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017570 Helix-turn-helix domains; Region: HTH; cl00088 406425017571 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425017572 putative effector binding pocket; other site 406425017573 putative dimerization interface [polypeptide binding]; other site 406425017574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017575 Helix-turn-helix domains; Region: HTH; cl00088 406425017576 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425017577 putative effector binding pocket; other site 406425017578 putative dimerization interface [polypeptide binding]; other site 406425017579 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 406425017580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017581 putative substrate translocation pore; other site 406425017582 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425017583 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425017584 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425017585 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425017586 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425017587 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425017588 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425017589 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425017590 Cytochrome c [Energy production and conversion]; Region: COG3258 406425017591 Cytochrome c; Region: Cytochrom_C; cl11414 406425017592 Helix-turn-helix domains; Region: HTH; cl00088 406425017593 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425017594 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425017595 putative effector binding pocket; other site 406425017596 dimerization interface [polypeptide binding]; other site 406425017597 classical (c) SDRs; Region: SDR_c; cd05233 406425017598 short chain dehydrogenase; Provisional; Region: PRK07041 406425017599 NAD(P) binding site [chemical binding]; other site 406425017600 active site 406425017601 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425017602 FMN binding site [chemical binding]; other site 406425017603 active site 406425017604 substrate binding site [chemical binding]; other site 406425017605 catalytic residue [active] 406425017606 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425017607 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425017608 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425017609 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425017610 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425017611 metal binding site [ion binding]; metal-binding site 406425017612 putative dimer interface [polypeptide binding]; other site 406425017613 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017614 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425017615 putative substrate translocation pore; other site 406425017616 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425017617 Helix-turn-helix domains; Region: HTH; cl00088 406425017618 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017619 dimerization interface [polypeptide binding]; other site 406425017620 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 406425017621 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425017622 substrate binding pocket [chemical binding]; other site 406425017623 membrane-bound complex binding site; other site 406425017624 hinge residues; other site 406425017625 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 406425017626 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 406425017627 active site 406425017628 Zn binding site [ion binding]; other site 406425017629 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 406425017630 Helix-turn-helix domains; Region: HTH; cl00088 406425017631 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425017632 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 406425017633 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 406425017634 dimer interface [polypeptide binding]; other site 406425017635 active site 406425017636 Protein of unknown function (DUF523); Region: DUF523; cl00733 406425017637 Predicted acetyltransferase [General function prediction only]; Region: COG3153 406425017638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425017639 Coenzyme A binding pocket [chemical binding]; other site 406425017640 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425017641 S-adenosylmethionine binding site [chemical binding]; other site 406425017642 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425017643 PAS domain; Region: PAS_9; pfam13426 406425017644 putative active site [active] 406425017645 heme pocket [chemical binding]; other site 406425017646 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425017647 dimerization interface [polypeptide binding]; other site 406425017648 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425017649 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425017650 dimer interface [polypeptide binding]; other site 406425017651 putative CheW interface [polypeptide binding]; other site 406425017652 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425017653 PAS domain; Region: PAS_9; pfam13426 406425017654 putative active site [active] 406425017655 heme pocket [chemical binding]; other site 406425017656 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425017657 dimerization interface [polypeptide binding]; other site 406425017658 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425017659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425017660 dimer interface [polypeptide binding]; other site 406425017661 putative CheW interface [polypeptide binding]; other site 406425017662 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425017663 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425017664 tetramerization interface [polypeptide binding]; other site 406425017665 NAD(P) binding site [chemical binding]; other site 406425017666 catalytic residues [active] 406425017667 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 406425017668 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425017669 inhibitor-cofactor binding pocket; inhibition site 406425017670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425017671 catalytic residue [active] 406425017672 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425017673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425017674 DNA-binding site [nucleotide binding]; DNA binding site 406425017675 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425017676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425017677 homodimer interface [polypeptide binding]; other site 406425017678 catalytic residue [active] 406425017679 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 406425017680 selenophosphate synthetase; Provisional; Region: PRK00943 406425017681 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 406425017682 dimerization interface [polypeptide binding]; other site 406425017683 putative ATP binding site [chemical binding]; other site 406425017684 LysE type translocator; Region: LysE; cl00565 406425017685 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 406425017686 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425017687 transcriptional regulator; Provisional; Region: PRK10632 406425017688 Helix-turn-helix domains; Region: HTH; cl00088 406425017689 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425017690 putative effector binding pocket; other site 406425017691 putative dimerization interface [polypeptide binding]; other site 406425017692 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425017693 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425017694 substrate binding pocket [chemical binding]; other site 406425017695 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425017696 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425017697 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425017698 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425017699 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 406425017700 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425017701 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017702 Helix-turn-helix domains; Region: HTH; cl00088 406425017703 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425017704 dimerization interface [polypeptide binding]; other site 406425017705 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425017706 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425017707 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425017708 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 406425017709 nucleophilic elbow; other site 406425017710 catalytic triad; other site 406425017711 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 406425017712 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425017713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017714 active site 406425017715 phosphorylation site [posttranslational modification] 406425017716 intermolecular recognition site; other site 406425017717 dimerization interface [polypeptide binding]; other site 406425017718 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425017719 Walker A motif; other site 406425017720 ATP binding site [chemical binding]; other site 406425017721 Walker B motif; other site 406425017722 arginine finger; other site 406425017723 Helix-turn-helix domains; Region: HTH; cl00088 406425017724 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 406425017725 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425017726 dimer interface [polypeptide binding]; other site 406425017727 phosphorylation site [posttranslational modification] 406425017728 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425017729 ATP binding site [chemical binding]; other site 406425017730 Mg2+ binding site [ion binding]; other site 406425017731 G-X-G motif; other site 406425017732 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 406425017733 NMT1-like family; Region: NMT1_2; cl15260 406425017734 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425017735 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425017736 active site 406425017737 non-prolyl cis peptide bond; other site 406425017738 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 406425017739 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 406425017740 Walker A/P-loop; other site 406425017741 ATP binding site [chemical binding]; other site 406425017742 Q-loop/lid; other site 406425017743 ABC transporter signature motif; other site 406425017744 Walker B; other site 406425017745 D-loop; other site 406425017746 H-loop/switch region; other site 406425017747 NIL domain; Region: NIL; cl09633 406425017748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017749 dimer interface [polypeptide binding]; other site 406425017750 conserved gate region; other site 406425017751 ABC-ATPase subunit interface; other site 406425017752 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 406425017753 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 406425017754 Flavin binding site [chemical binding]; other site 406425017755 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 406425017756 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425017757 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 406425017758 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 406425017759 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 406425017760 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 406425017761 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 406425017762 trimer interface [polypeptide binding]; other site 406425017763 active site 406425017764 dihydroorotase; Validated; Region: PRK09060 406425017765 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 406425017766 active site 406425017767 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425017768 Helix-turn-helix domains; Region: HTH; cl00088 406425017769 AsnC family; Region: AsnC_trans_reg; pfam01037 406425017770 LysE type translocator; Region: LysE; cl00565 406425017771 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 406425017772 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425017773 non-specific DNA binding site [nucleotide binding]; other site 406425017774 salt bridge; other site 406425017775 sequence-specific DNA binding site [nucleotide binding]; other site 406425017776 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 406425017777 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 406425017778 active site 406425017779 putative substrate binding region [chemical binding]; other site 406425017780 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017781 D-galactonate transporter; Region: 2A0114; TIGR00893 406425017782 putative substrate translocation pore; other site 406425017783 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017784 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425017785 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 406425017786 dimer interface [polypeptide binding]; other site 406425017787 NADP binding site [chemical binding]; other site 406425017788 catalytic residues [active] 406425017789 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 406425017790 putative active site [active] 406425017791 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 406425017792 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 406425017793 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 406425017794 putative active site [active] 406425017795 catalytic residue [active] 406425017796 galactarate dehydratase; Region: galactar-dH20; TIGR03248 406425017797 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 406425017798 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 406425017799 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425017800 Helix-turn-helix domains; Region: HTH; cl00088 406425017801 AsnC family; Region: AsnC_trans_reg; pfam01037 406425017802 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425017803 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425017804 dimerization interface [polypeptide binding]; other site 406425017805 ligand binding site [chemical binding]; other site 406425017806 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cl00234 406425017807 active site 406425017808 catalytic residues [active] 406425017809 metal binding site [ion binding]; metal-binding site 406425017810 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 406425017811 homodimer interface [polypeptide binding]; other site 406425017812 substrate-cofactor binding pocket; other site 406425017813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425017814 catalytic residue [active] 406425017815 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425017816 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 406425017817 DoxX; Region: DoxX; cl00976 406425017818 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425017819 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017820 putative substrate translocation pore; other site 406425017821 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425017822 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425017823 dimerization interface [polypeptide binding]; other site 406425017824 ligand binding site [chemical binding]; other site 406425017825 PAS fold; Region: PAS_4; pfam08448 406425017826 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425017827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425017828 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 406425017829 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 406425017830 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 406425017831 dimer interface [polypeptide binding]; other site 406425017832 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 406425017833 active site 406425017834 Fe binding site [ion binding]; other site 406425017835 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 406425017836 active site 406425017837 trimer interface [polypeptide binding]; other site 406425017838 dimer interface [polypeptide binding]; other site 406425017839 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 406425017840 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 406425017841 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 406425017842 shikimate binding site; other site 406425017843 NAD(P) binding site [chemical binding]; other site 406425017844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017845 D-galactonate transporter; Region: 2A0114; TIGR00893 406425017846 putative substrate translocation pore; other site 406425017847 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 406425017848 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 406425017849 catalytic residue [active] 406425017850 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425017851 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425017852 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 406425017853 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425017854 Walker A/P-loop; other site 406425017855 ATP binding site [chemical binding]; other site 406425017856 Q-loop/lid; other site 406425017857 ABC transporter signature motif; other site 406425017858 Walker B; other site 406425017859 D-loop; other site 406425017860 H-loop/switch region; other site 406425017861 TOBE domain; Region: TOBE_2; cl01440 406425017862 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 406425017863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425017864 dimer interface [polypeptide binding]; other site 406425017865 conserved gate region; other site 406425017866 putative PBP binding loops; other site 406425017867 ABC-ATPase subunit interface; other site 406425017868 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425017869 Sulfatase; Region: Sulfatase; cl10460 406425017870 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 406425017871 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425017872 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 406425017873 NAD(P) binding site [chemical binding]; other site 406425017874 catalytic residues [active] 406425017875 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425017876 putative transporter; Provisional; Region: PRK10504 406425017877 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017878 putative substrate translocation pore; other site 406425017879 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425017880 Phosphate transporter family; Region: PHO4; cl00396 406425017881 Phosphate transporter family; Region: PHO4; cl00396 406425017882 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 406425017883 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 406425017884 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 406425017885 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 406425017886 Helix-turn-helix domains; Region: HTH; cl00088 406425017887 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 406425017888 putative dimerization interface [polypeptide binding]; other site 406425017889 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 406425017890 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 406425017891 THF binding site; other site 406425017892 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 406425017893 substrate binding site [chemical binding]; other site 406425017894 THF binding site; other site 406425017895 zinc-binding site [ion binding]; other site 406425017896 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425017897 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017898 putative substrate translocation pore; other site 406425017899 Arginase family; Region: Arginase; cl00306 406425017900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017901 Helix-turn-helix domains; Region: HTH; cl00088 406425017902 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425017903 dimerization interface [polypeptide binding]; other site 406425017904 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425017905 Helix-turn-helix domains; Region: HTH; cl00088 406425017906 AsnC family; Region: AsnC_trans_reg; pfam01037 406425017907 LysE type translocator; Region: LysE; cl00565 406425017908 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 406425017909 peptidase domain interface [polypeptide binding]; other site 406425017910 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 406425017911 active site 406425017912 catalytic triad [active] 406425017913 calcium binding site [ion binding]; other site 406425017914 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 406425017915 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 406425017916 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 406425017917 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 406425017918 homodimer interface [polypeptide binding]; other site 406425017919 NAD binding pocket [chemical binding]; other site 406425017920 ATP binding pocket [chemical binding]; other site 406425017921 Mg binding site [ion binding]; other site 406425017922 active-site loop [active] 406425017923 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 406425017924 Helix-turn-helix domains; Region: HTH; cl00088 406425017925 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 406425017926 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 406425017927 putative active site [active] 406425017928 catalytic site [active] 406425017929 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 406425017930 putative active site [active] 406425017931 catalytic site [active] 406425017932 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 406425017933 Helix-turn-helix domains; Region: HTH; cl00088 406425017934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425017935 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425017936 lysine transporter; Provisional; Region: PRK10836 406425017937 Spore germination protein; Region: Spore_permease; cl15802 406425017938 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 406425017939 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425017940 tetrameric interface [polypeptide binding]; other site 406425017941 NAD binding site [chemical binding]; other site 406425017942 catalytic residues [active] 406425017943 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 406425017944 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 406425017945 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 406425017946 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 406425017947 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 406425017948 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine'...; Region: Peptidase_C39_likeA; cd02417 406425017949 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 406425017950 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 406425017951 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425017952 Walker A/P-loop; other site 406425017953 ATP binding site [chemical binding]; other site 406425017954 Q-loop/lid; other site 406425017955 ABC transporter signature motif; other site 406425017956 Walker B; other site 406425017957 D-loop; other site 406425017958 H-loop/switch region; other site 406425017959 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 406425017960 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425017961 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425017962 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 406425017963 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 406425017964 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 406425017965 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425017966 benzoate transport; Region: 2A0115; TIGR00895 406425017967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425017969 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425017970 trimer interface [polypeptide binding]; other site 406425017971 eyelet of channel; other site 406425017972 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 406425017973 active site 406425017974 tetramer interface [polypeptide binding]; other site 406425017975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425017976 Helix-turn-helix domains; Region: HTH; cl00088 406425017977 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425017978 dimerization interface [polypeptide binding]; other site 406425017979 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 406425017980 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 406425017981 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425017982 active site 406425017983 Transglycosylase; Region: Transgly; cl07896 406425017984 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 406425017985 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425017986 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425017987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425017988 DNA-binding site [nucleotide binding]; DNA binding site 406425017989 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425017990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425017991 homodimer interface [polypeptide binding]; other site 406425017992 catalytic residue [active] 406425017993 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 406425017994 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 406425017995 catalytic residues [active] 406425017996 osmolarity response regulator; Provisional; Region: ompR; PRK09468 406425017997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425017998 active site 406425017999 phosphorylation site [posttranslational modification] 406425018000 intermolecular recognition site; other site 406425018001 dimerization interface [polypeptide binding]; other site 406425018002 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425018003 DNA binding site [nucleotide binding] 406425018004 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425018005 dimerization interface [polypeptide binding]; other site 406425018006 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425018007 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425018008 ATP binding site [chemical binding]; other site 406425018009 Mg2+ binding site [ion binding]; other site 406425018010 G-X-G motif; other site 406425018011 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425018012 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425018013 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425018014 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425018015 active site 406425018016 metal binding site [ion binding]; metal-binding site 406425018017 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425018018 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425018019 LysE type translocator; Region: LysE; cl00565 406425018020 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018021 trimer interface [polypeptide binding]; other site 406425018022 eyelet of channel; other site 406425018023 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 406425018024 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425018025 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425018026 N-terminal plug; other site 406425018027 ligand-binding site [chemical binding]; other site 406425018028 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425018029 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 406425018030 FMN-binding pocket [chemical binding]; other site 406425018031 flavin binding motif; other site 406425018032 phosphate binding motif [ion binding]; other site 406425018033 beta-alpha-beta structure motif; other site 406425018034 NAD binding pocket [chemical binding]; other site 406425018035 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425018036 catalytic loop [active] 406425018037 iron binding site [ion binding]; other site 406425018038 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425018039 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 406425018040 iron-sulfur cluster [ion binding]; other site 406425018041 [2Fe-2S] cluster binding site [ion binding]; other site 406425018042 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 406425018043 alpha subunit interface [polypeptide binding]; other site 406425018044 active site 406425018045 substrate binding site [chemical binding]; other site 406425018046 Fe binding site [ion binding]; other site 406425018047 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425018048 Helix-turn-helix domains; Region: HTH; cl00088 406425018049 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425018050 Helix-turn-helix domains; Region: HTH; cl00088 406425018051 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 406425018052 isovaleryl-CoA dehydrogenase; Region: PLN02519 406425018053 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 406425018054 substrate binding site [chemical binding]; other site 406425018055 FAD binding site [chemical binding]; other site 406425018056 catalytic base [active] 406425018057 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 406425018058 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 406425018059 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 406425018060 enoyl-CoA hydratase; Provisional; Region: PRK05995 406425018061 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425018062 substrate binding site [chemical binding]; other site 406425018063 oxyanion hole (OAH) forming residues; other site 406425018064 trimer interface [polypeptide binding]; other site 406425018065 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 406425018066 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 406425018067 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 406425018068 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 406425018069 carboxyltransferase (CT) interaction site; other site 406425018070 biotinylation site [posttranslational modification]; other site 406425018071 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 406425018072 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425018073 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425018074 Domain of unknown function (DUF756); Region: DUF756; pfam05506 406425018075 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; cl05288 406425018076 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425018077 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 406425018078 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425018079 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425018080 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 406425018081 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425018082 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 406425018083 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425018084 ligand binding site [chemical binding]; other site 406425018085 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 406425018086 Haemagglutinin; Region: HIM; pfam05662 406425018087 YadA-like C-terminal region; Region: YadA; pfam03895 406425018088 Helix-turn-helix domains; Region: HTH; cl00088 406425018089 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425018090 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 406425018091 Walker A motif; other site 406425018092 ATP binding site [chemical binding]; other site 406425018093 Walker B motif; other site 406425018094 arginine finger; other site 406425018095 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425018096 non-specific DNA binding site [nucleotide binding]; other site 406425018097 salt bridge; other site 406425018098 sequence-specific DNA binding site [nucleotide binding]; other site 406425018099 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 406425018100 Helix-turn-helix domains; Region: HTH; cl00088 406425018101 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 406425018102 HTH-like domain; Region: HTH_21; pfam13276 406425018103 Integrase core domain; Region: rve; cl01316 406425018104 Integrase core domain; Region: rve_3; cl15866 406425018105 Integrase core domain; Region: rve; cl01316 406425018106 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425018107 TniQ; Region: TniQ; pfam06527 406425018108 TniQ; Region: TniQ; pfam06527 406425018109 H-NS histone family; Region: Histone_HNS; pfam00816 406425018110 Seripauperin and TIP1 family; Region: SRP1_TIP1; pfam00660 406425018111 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425018112 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 406425018113 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 406425018114 putative transposase OrfB; Reviewed; Region: PHA02517 406425018115 HTH-like domain; Region: HTH_21; pfam13276 406425018116 Integrase core domain; Region: rve; cl01316 406425018117 Integrase core domain; Region: rve_3; cl15866 406425018118 Helix-turn-helix domains; Region: HTH; cl00088 406425018119 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425018120 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 406425018121 active site 406425018122 FRG domain; Region: FRG; cl07460 406425018123 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425018124 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425018125 conserved cys residue [active] 406425018126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018127 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425018128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018129 short chain dehydrogenase; Provisional; Region: PRK07041 406425018130 NAD(P) binding site [chemical binding]; other site 406425018131 active site 406425018132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018133 putative substrate translocation pore; other site 406425018134 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 406425018135 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425018136 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425018137 conserved cys residue [active] 406425018138 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 406425018139 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 406425018140 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 406425018141 dimer interface [polypeptide binding]; other site 406425018142 active site 406425018143 heme binding site [chemical binding]; other site 406425018144 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 406425018145 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 406425018146 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425018147 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425018148 transcriptional regulator; Provisional; Region: PRK10632 406425018149 Helix-turn-helix domains; Region: HTH; cl00088 406425018150 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425018151 dimerization interface [polypeptide binding]; other site 406425018152 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425018153 ligand binding site [chemical binding]; other site 406425018154 flexible hinge region; other site 406425018155 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 406425018156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018157 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425018158 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425018159 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425018160 catalytic loop [active] 406425018161 iron binding site [ion binding]; other site 406425018162 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425018163 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425018164 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425018165 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425018166 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425018167 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425018168 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 406425018169 Cytochrome c; Region: Cytochrom_C; cl11414 406425018170 BON domain; Region: BON; cl02771 406425018171 transcriptional regulator; Provisional; Region: PRK10632 406425018172 Helix-turn-helix domains; Region: HTH; cl00088 406425018173 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425018174 dimerization interface [polypeptide binding]; other site 406425018175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425018176 Response regulator receiver domain; Region: Response_reg; pfam00072 406425018177 active site 406425018178 phosphorylation site [posttranslational modification] 406425018179 intermolecular recognition site; other site 406425018180 dimerization interface [polypeptide binding]; other site 406425018181 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425018182 PAS domain; Region: PAS_9; pfam13426 406425018183 putative diguanylate cyclase; Provisional; Region: PRK09776 406425018184 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425018185 PAS fold; Region: PAS_3; pfam08447 406425018186 putative active site [active] 406425018187 heme pocket [chemical binding]; other site 406425018188 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425018189 dimer interface [polypeptide binding]; other site 406425018190 phosphorylation site [posttranslational modification] 406425018191 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425018192 ATP binding site [chemical binding]; other site 406425018193 Mg2+ binding site [ion binding]; other site 406425018194 G-X-G motif; other site 406425018195 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 406425018196 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425018197 active site 406425018198 phosphorylation site [posttranslational modification] 406425018199 intermolecular recognition site; other site 406425018200 dimerization interface [polypeptide binding]; other site 406425018201 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425018202 DNA binding residues [nucleotide binding] 406425018203 dimerization interface [polypeptide binding]; other site 406425018204 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 406425018205 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018206 putative substrate translocation pore; other site 406425018207 mercuric reductase; Validated; Region: PRK06370 406425018208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425018209 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 406425018210 Family description; Region: UvrD_C_2; cl15862 406425018211 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 406425018212 HTH-like domain; Region: HTH_21; pfam13276 406425018213 Integrase core domain; Region: rve; cl01316 406425018214 Integrase core domain; Region: rve_3; cl15866 406425018215 Helix-turn-helix domains; Region: HTH; cl00088 406425018216 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425018217 HEPN domain; Region: HEPN; cl00824 406425018218 Domain of unknown function (DUF955); Region: DUF955; cl01076 406425018219 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425018220 non-specific DNA binding site [nucleotide binding]; other site 406425018221 salt bridge; other site 406425018222 sequence-specific DNA binding site [nucleotide binding]; other site 406425018223 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 406425018224 Surface antigen; Region: Bac_surface_Ag; cl03097 406425018225 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425018226 NIPSNAP; Region: NIPSNAP; pfam07978 406425018227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425018228 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 406425018229 Coenzyme A binding pocket [chemical binding]; other site 406425018230 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 406425018231 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 406425018232 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 406425018233 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 406425018234 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 406425018235 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 406425018236 Walker A/P-loop; other site 406425018237 ATP binding site [chemical binding]; other site 406425018238 Q-loop/lid; other site 406425018239 ABC transporter signature motif; other site 406425018240 Walker B; other site 406425018241 D-loop; other site 406425018242 H-loop/switch region; other site 406425018243 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 406425018244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018245 dimer interface [polypeptide binding]; other site 406425018246 conserved gate region; other site 406425018247 putative PBP binding loops; other site 406425018248 ABC-ATPase subunit interface; other site 406425018249 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425018250 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425018251 conserved cys residue [active] 406425018252 NMT1-like family; Region: NMT1_2; cl15260 406425018253 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 406425018254 Predicted membrane protein [Function unknown]; Region: COG2860 406425018255 UPF0126 domain; Region: UPF0126; pfam03458 406425018256 Predicted membrane protein [Function unknown]; Region: COG4125 406425018257 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425018258 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 406425018259 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425018260 Helix-turn-helix domains; Region: HTH; cl00088 406425018261 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425018262 dimerization interface [polypeptide binding]; other site 406425018263 Ubiquitin-like proteins; Region: UBQ; cl00155 406425018264 charged pocket; other site 406425018265 hydrophobic patch; other site 406425018266 Cupin domain; Region: Cupin_2; cl09118 406425018267 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425018268 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425018269 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425018270 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 406425018271 putative NAD(P) binding site [chemical binding]; other site 406425018272 active site 406425018273 putative substrate binding site [chemical binding]; other site 406425018274 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 406425018275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018276 D-galactonate transporter; Region: 2A0114; TIGR00893 406425018277 putative substrate translocation pore; other site 406425018278 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 406425018279 intersubunit interface [polypeptide binding]; other site 406425018280 active site 406425018281 Zn2+ binding site [ion binding]; other site 406425018282 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 406425018283 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425018284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018285 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425018286 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425018287 DNA-binding site [nucleotide binding]; DNA binding site 406425018288 FCD domain; Region: FCD; cl11656 406425018289 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425018290 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425018291 conserved cys residue [active] 406425018292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018293 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 406425018294 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 406425018295 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 406425018296 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 406425018297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018298 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 406425018299 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 406425018300 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425018301 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 406425018302 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 406425018303 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 406425018304 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 406425018305 active site 406425018306 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425018307 non-specific DNA binding site [nucleotide binding]; other site 406425018308 salt bridge; other site 406425018309 sequence-specific DNA binding site [nucleotide binding]; other site 406425018310 HipA N-terminal domain; Region: Couple_hipA; cl11853 406425018311 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 406425018312 HipA-like N-terminal domain; Region: HipA_N; pfam07805 406425018313 HipA-like C-terminal domain; Region: HipA_C; pfam07804 406425018314 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425018315 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425018316 catalytic residue [active] 406425018317 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 406425018318 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425018319 ABC-ATPase subunit interface; other site 406425018320 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 406425018321 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 406425018322 Walker A/P-loop; other site 406425018323 ATP binding site [chemical binding]; other site 406425018324 Q-loop/lid; other site 406425018325 ABC transporter signature motif; other site 406425018326 Walker B; other site 406425018327 D-loop; other site 406425018328 H-loop/switch region; other site 406425018329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425018330 NMT1-like family; Region: NMT1_2; cl15260 406425018331 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 406425018332 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 406425018333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018334 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 406425018335 active site 406425018336 8-oxo-dGMP binding site [chemical binding]; other site 406425018337 nudix motif; other site 406425018338 metal binding site [ion binding]; metal-binding site 406425018339 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 406425018340 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425018341 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 406425018342 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 406425018343 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425018344 FtsX-like permease family; Region: FtsX; cl15850 406425018345 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 406425018346 MG2 domain; Region: A2M_N; pfam01835 406425018347 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 406425018348 Alpha-2-macroglobulin family; Region: A2M; pfam00207 406425018349 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 406425018350 surface patch; other site 406425018351 thioester region; other site 406425018352 specificity defining residues; other site 406425018353 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 406425018354 Transglycosylase; Region: Transgly; cl07896 406425018355 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425018356 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 406425018357 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425018358 dimer interface [polypeptide binding]; other site 406425018359 putative CheW interface [polypeptide binding]; other site 406425018360 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018361 trimer interface [polypeptide binding]; other site 406425018362 eyelet of channel; other site 406425018363 acetyl-CoA synthetase; Provisional; Region: PRK00174 406425018364 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 406425018365 AMP-binding enzyme; Region: AMP-binding; cl15778 406425018366 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425018367 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 406425018368 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 406425018369 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 406425018370 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425018371 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 406425018372 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425018373 DNA binding residues [nucleotide binding] 406425018374 High potential iron-sulfur protein; Region: HIPIP; pfam01355 406425018375 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425018376 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425018377 substrate binding pocket [chemical binding]; other site 406425018378 membrane-bound complex binding site; other site 406425018379 hinge residues; other site 406425018380 Cytochrome c; Region: Cytochrom_C; cl11414 406425018381 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 406425018382 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 406425018383 dimer interface [polypeptide binding]; other site 406425018384 Trp docking motif [polypeptide binding]; other site 406425018385 active site 406425018386 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 406425018387 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425018388 N-terminal plug; other site 406425018389 ligand-binding site [chemical binding]; other site 406425018390 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 406425018391 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425018392 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425018393 Walker A motif; other site 406425018394 ATP binding site [chemical binding]; other site 406425018395 Walker B motif; other site 406425018396 arginine finger; other site 406425018397 Helix-turn-helix domains; Region: HTH; cl00088 406425018398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 406425018399 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 406425018400 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 406425018401 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 406425018402 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 406425018403 FeS/SAM binding site; other site 406425018404 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 406425018405 Predicted esterase [General function prediction only]; Region: COG0627 406425018406 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425018407 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425018408 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425018409 YCII-related domain; Region: YCII; cl00999 406425018410 PAS fold; Region: PAS_4; pfam08448 406425018411 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 406425018412 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425018413 dimer interface [polypeptide binding]; other site 406425018414 phosphorylation site [posttranslational modification] 406425018415 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425018416 ATP binding site [chemical binding]; other site 406425018417 G-X-G motif; other site 406425018418 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 406425018419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425018420 active site 406425018421 phosphorylation site [posttranslational modification] 406425018422 intermolecular recognition site; other site 406425018423 dimerization interface [polypeptide binding]; other site 406425018424 benzoate transport; Region: 2A0115; TIGR00895 406425018425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018426 putative substrate translocation pore; other site 406425018427 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018428 ABC-2 type transporter; Region: ABC2_membrane; cl11417 406425018429 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 406425018430 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 406425018431 Walker A/P-loop; other site 406425018432 ATP binding site [chemical binding]; other site 406425018433 Q-loop/lid; other site 406425018434 ABC transporter signature motif; other site 406425018435 Walker B; other site 406425018436 D-loop; other site 406425018437 H-loop/switch region; other site 406425018438 Cupin domain; Region: Cupin_2; cl09118 406425018439 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425018440 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 406425018441 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425018442 choline dehydrogenase; Validated; Region: PRK02106 406425018443 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425018444 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425018445 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 406425018446 tetrameric interface [polypeptide binding]; other site 406425018447 NAD binding site [chemical binding]; other site 406425018448 catalytic residues [active] 406425018449 transcriptional regulator BetI; Validated; Region: PRK00767 406425018450 Helix-turn-helix domains; Region: HTH; cl00088 406425018451 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 406425018452 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425018453 Phospholipid methyltransferase; Region: PEMT; cl00763 406425018454 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 406425018455 active site 406425018456 TDP-binding site; other site 406425018457 acceptor substrate-binding pocket; other site 406425018458 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425018459 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018460 putative substrate translocation pore; other site 406425018461 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018462 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 406425018463 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 406425018464 Ligand binding site; other site 406425018465 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425018466 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 406425018467 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 406425018468 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425018469 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 406425018470 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 406425018471 NAD binding site [chemical binding]; other site 406425018472 catalytic Zn binding site [ion binding]; other site 406425018473 structural Zn binding site [ion binding]; other site 406425018474 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 406425018475 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425018476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425018477 DNA-binding site [nucleotide binding]; DNA binding site 406425018478 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425018479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425018480 homodimer interface [polypeptide binding]; other site 406425018481 catalytic residue [active] 406425018482 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 406425018483 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 406425018484 sugar binding site [chemical binding]; other site 406425018485 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 406425018486 PAAR motif; Region: PAAR_motif; cl15808 406425018487 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425018488 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425018489 conserved cys residue [active] 406425018490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018491 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 406425018492 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 406425018493 dimer interface [polypeptide binding]; other site 406425018494 active site 406425018495 glycine-pyridoxal phosphate binding site [chemical binding]; other site 406425018496 folate binding site [chemical binding]; other site 406425018497 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 406425018498 active site 406425018499 dimer interface [polypeptide binding]; other site 406425018500 Heme NO binding; Region: HNOB; cl15268 406425018501 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 406425018502 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 406425018503 putative active site [active] 406425018504 putative FMN binding site [chemical binding]; other site 406425018505 putative substrate binding site [chemical binding]; other site 406425018506 putative catalytic residue [active] 406425018507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018508 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 406425018509 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 406425018510 Cysteine-rich domain; Region: CCG; pfam02754 406425018511 Cysteine-rich domain; Region: CCG; pfam02754 406425018512 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 406425018513 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 406425018514 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 406425018515 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425018516 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 406425018517 [2Fe-2S] cluster binding site [ion binding]; other site 406425018518 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 406425018519 putative alpha subunit interface [polypeptide binding]; other site 406425018520 putative active site [active] 406425018521 putative substrate binding site [chemical binding]; other site 406425018522 Fe binding site [ion binding]; other site 406425018523 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 406425018524 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 406425018525 FAD binding pocket [chemical binding]; other site 406425018526 FAD binding motif [chemical binding]; other site 406425018527 phosphate binding motif [ion binding]; other site 406425018528 beta-alpha-beta structure motif; other site 406425018529 NAD binding pocket [chemical binding]; other site 406425018530 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425018531 catalytic loop [active] 406425018532 iron binding site [ion binding]; other site 406425018533 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 406425018534 NMT1-like family; Region: NMT1_2; cl15260 406425018535 Amino acid permease; Region: AA_permease_2; pfam13520 406425018536 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 406425018537 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 406425018538 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 406425018539 putative active site [active] 406425018540 putative substrate binding site [chemical binding]; other site 406425018541 putative cosubstrate binding site; other site 406425018542 catalytic site [active] 406425018543 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 406425018544 Helix-turn-helix domains; Region: HTH; cl00088 406425018545 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425018546 dimerization interface [polypeptide binding]; other site 406425018547 substrate binding pocket [chemical binding]; other site 406425018548 choline-sulfatase; Region: chol_sulfatase; TIGR03417 406425018549 Sulfatase; Region: Sulfatase; cl10460 406425018550 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 406425018551 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 406425018552 NMT1-like family; Region: NMT1_2; cl15260 406425018553 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425018554 trimer interface [polypeptide binding]; other site 406425018555 eyelet of channel; other site 406425018556 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425018557 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 406425018558 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 406425018559 active site 406425018560 metal binding site [ion binding]; metal-binding site 406425018561 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 406425018562 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 406425018563 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 406425018564 Zn binding site [ion binding]; other site 406425018565 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 406425018566 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 406425018567 conserved cys residue [active] 406425018568 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018569 transcriptional regulator EutR; Provisional; Region: PRK10130 406425018570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018571 Methylamine dehydrogenase heavy chain (MADH); Region: Me-amine-dh_H; pfam06433 406425018572 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 406425018573 DoxX; Region: DoxX; cl00976 406425018574 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 406425018575 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 406425018576 Cytochrome c; Region: Cytochrom_C; cl11414 406425018577 Cytochrome c; Region: Cytochrom_C; cl11414 406425018578 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425018579 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425018580 NAD(P) binding site [chemical binding]; other site 406425018581 catalytic residues [active] 406425018582 Protein of unknown function, DUF606; Region: DUF606; cl01273 406425018583 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 406425018584 Helix-turn-helix domains; Region: HTH; cl00088 406425018585 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425018586 dimerization interface [polypeptide binding]; other site 406425018587 substrate binding pocket [chemical binding]; other site 406425018588 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 406425018589 NMT1-like family; Region: NMT1_2; cl15260 406425018590 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 406425018591 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 406425018592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018593 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425018594 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 406425018595 active site 406425018596 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425018597 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 406425018598 Protein of unknown function (DUF971); Region: DUF971; cl01414 406425018599 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 406425018600 substrate binding pocket [chemical binding]; other site 406425018601 active site 406425018602 iron coordination sites [ion binding]; other site 406425018603 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425018604 short chain dehydrogenase; Provisional; Region: PRK06197 406425018605 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 406425018606 putative NAD(P) binding site [chemical binding]; other site 406425018607 active site 406425018608 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425018609 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425018610 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 406425018611 NAD binding site [chemical binding]; other site 406425018612 homotetramer interface [polypeptide binding]; other site 406425018613 homodimer interface [polypeptide binding]; other site 406425018614 active site 406425018615 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 406425018616 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425018617 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 406425018618 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 406425018619 putative active site pocket [active] 406425018620 metal binding site [ion binding]; metal-binding site 406425018621 short chain dehydrogenase; Provisional; Region: PRK08628 406425018622 classical (c) SDRs; Region: SDR_c; cd05233 406425018623 NAD(P) binding site [chemical binding]; other site 406425018624 active site 406425018625 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425018626 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 406425018627 Walker A/P-loop; other site 406425018628 ATP binding site [chemical binding]; other site 406425018629 Q-loop/lid; other site 406425018630 ABC transporter signature motif; other site 406425018631 Walker B; other site 406425018632 D-loop; other site 406425018633 H-loop/switch region; other site 406425018634 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425018635 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425018636 TM-ABC transporter signature motif; other site 406425018637 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 406425018638 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425018639 putative ligand binding site [chemical binding]; other site 406425018640 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425018641 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425018642 Transcriptional regulators [Transcription]; Region: GntR; COG1802 406425018643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425018644 DNA-binding site [nucleotide binding]; DNA binding site 406425018645 FCD domain; Region: FCD; cl11656 406425018646 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 406425018647 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 406425018648 phosphate binding site [ion binding]; other site 406425018649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018650 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425018651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018652 amidase; Provisional; Region: PRK09201 406425018653 Amidase; Region: Amidase; cl11426 406425018654 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018655 D-galactonate transporter; Region: 2A0114; TIGR00893 406425018656 putative substrate translocation pore; other site 406425018657 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 406425018658 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 406425018659 active site 406425018660 putative substrate binding pocket [chemical binding]; other site 406425018661 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 406425018662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018663 Helix-turn-helix domains; Region: HTH; cl00088 406425018664 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425018665 putative dimerization interface [polypeptide binding]; other site 406425018666 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 406425018667 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 406425018668 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425018669 metal binding site [ion binding]; metal-binding site 406425018670 active site 406425018671 I-site; other site 406425018672 putative outer membrane lipoprotein; Provisional; Region: PRK09967 406425018673 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425018674 ligand binding site [chemical binding]; other site 406425018675 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 406425018676 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 406425018677 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 406425018678 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 406425018679 PAAR motif; Region: PAAR_motif; cl15808 406425018680 RHS Repeat; Region: RHS_repeat; cl11982 406425018681 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 406425018682 RHS Repeat; Region: RHS_repeat; cl11982 406425018683 RHS Repeat; Region: RHS_repeat; cl11982 406425018684 RHS Repeat; Region: RHS_repeat; cl11982 406425018685 RHS Repeat; Region: RHS_repeat; cl11982 406425018686 RHS Repeat; Region: RHS_repeat; cl11982 406425018687 RHS protein; Region: RHS; pfam03527 406425018688 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 406425018689 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 406425018690 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 406425018691 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 406425018692 hypothetical protein; Provisional; Region: PRK04262 406425018693 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 406425018694 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425018695 dimerization interface [polypeptide binding]; other site 406425018696 ligand binding site [chemical binding]; other site 406425018697 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425018698 TM-ABC transporter signature motif; other site 406425018699 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 406425018700 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 406425018701 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425018702 TM-ABC transporter signature motif; other site 406425018703 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 406425018704 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425018705 Walker A/P-loop; other site 406425018706 ATP binding site [chemical binding]; other site 406425018707 Q-loop/lid; other site 406425018708 ABC transporter signature motif; other site 406425018709 Walker B; other site 406425018710 D-loop; other site 406425018711 H-loop/switch region; other site 406425018712 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 406425018713 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425018714 Walker A/P-loop; other site 406425018715 ATP binding site [chemical binding]; other site 406425018716 Q-loop/lid; other site 406425018717 ABC transporter signature motif; other site 406425018718 Walker B; other site 406425018719 D-loop; other site 406425018720 H-loop/switch region; other site 406425018721 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018722 Helix-turn-helix domains; Region: HTH; cl00088 406425018723 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425018724 dimerization interface [polypeptide binding]; other site 406425018725 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425018726 EamA-like transporter family; Region: EamA; cl01037 406425018727 EamA-like transporter family; Region: EamA; cl01037 406425018728 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425018729 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 406425018730 dimer interface [polypeptide binding]; other site 406425018731 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 406425018732 Cupin domain; Region: Cupin_2; cl09118 406425018733 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425018734 Cupin domain; Region: Cupin_2; cl09118 406425018735 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018736 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425018737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018738 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425018739 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 406425018740 NADP binding site [chemical binding]; other site 406425018741 active site 406425018742 steroid binding site; other site 406425018743 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425018744 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 406425018745 inhibitor-cofactor binding pocket; inhibition site 406425018746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425018747 catalytic residue [active] 406425018748 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425018749 Helix-turn-helix domains; Region: HTH; cl00088 406425018750 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 406425018751 putative dimerization interface [polypeptide binding]; other site 406425018752 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 406425018753 chorismate binding enzyme; Region: Chorismate_bind; cl10555 406425018754 Chorismate mutase type II; Region: CM_2; cl00693 406425018755 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 406425018756 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 406425018757 nucleophilic elbow; other site 406425018758 catalytic triad; other site 406425018759 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 406425018760 AMP-binding enzyme; Region: AMP-binding; cl15778 406425018761 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425018762 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018763 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425018764 Condensation domain; Region: Condensation; pfam00668 406425018765 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 406425018766 Nonribosomal peptide synthase; Region: NRPS; pfam08415 406425018767 AMP-binding enzyme; Region: AMP-binding; cl15778 406425018768 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 406425018769 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425018770 Condensation domain; Region: Condensation; pfam00668 406425018771 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 406425018772 Nonribosomal peptide synthase; Region: NRPS; pfam08415 406425018773 AMP-binding enzyme; Region: AMP-binding; cl15778 406425018774 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425018775 peptide synthase; Provisional; Region: PRK12467 406425018776 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425018777 Phosphopantetheine attachment site; Region: PP-binding; cl09936 406425018778 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 406425018779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018780 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425018781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425018782 Walker A/P-loop; other site 406425018783 ATP binding site [chemical binding]; other site 406425018784 Q-loop/lid; other site 406425018785 ABC transporter signature motif; other site 406425018786 Walker B; other site 406425018787 D-loop; other site 406425018788 H-loop/switch region; other site 406425018789 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 406425018790 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425018791 Walker A/P-loop; other site 406425018792 ATP binding site [chemical binding]; other site 406425018793 Q-loop/lid; other site 406425018794 ABC transporter signature motif; other site 406425018795 Walker B; other site 406425018796 D-loop; other site 406425018797 H-loop/switch region; other site 406425018798 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 406425018799 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425018800 N-terminal plug; other site 406425018801 ligand-binding site [chemical binding]; other site 406425018802 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 406425018803 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 406425018804 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 406425018805 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018806 Major Facilitator Superfamily; Region: MFS_1; pfam07690 406425018807 putative substrate translocation pore; other site 406425018808 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425018809 Helix-turn-helix domains; Region: HTH; cl00088 406425018810 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 406425018811 putative dimerization interface [polypeptide binding]; other site 406425018812 putative substrate binding pocket [chemical binding]; other site 406425018813 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 406425018814 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 406425018815 active site 406425018816 ATP binding site [chemical binding]; other site 406425018817 substrate binding site [chemical binding]; other site 406425018818 LysE type translocator; Region: LysE; cl00565 406425018819 Protein of unknown function (DUF461); Region: DUF461; cl01071 406425018820 Bacterial Ig-like domain; Region: Big_5; cl01012 406425018821 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 406425018822 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 406425018823 putative hydrophobic ligand binding site [chemical binding]; other site 406425018824 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425018825 catalytic loop [active] 406425018826 iron binding site [ion binding]; other site 406425018827 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 406425018828 GAF domain; Region: GAF; cl15785 406425018829 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425018830 Walker A motif; other site 406425018831 ATP binding site [chemical binding]; other site 406425018832 Walker B motif; other site 406425018833 arginine finger; other site 406425018834 Helix-turn-helix domains; Region: HTH; cl00088 406425018835 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 406425018836 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425018837 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 406425018838 TPR repeat; Region: TPR_11; pfam13414 406425018839 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425018840 binding surface 406425018841 TPR motif; other site 406425018842 TPR repeat; Region: TPR_11; pfam13414 406425018843 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 406425018844 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425018845 binding surface 406425018846 TPR motif; other site 406425018847 TPR repeat; Region: TPR_11; pfam13414 406425018848 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 406425018849 binding surface 406425018850 TPR motif; other site 406425018851 TPR repeat; Region: TPR_11; pfam13414 406425018852 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 406425018853 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 406425018854 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425018855 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425018856 short chain dehydrogenase; Validated; Region: PRK05855 406425018857 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425018858 classical (c) SDRs; Region: SDR_c; cd05233 406425018859 NAD(P) binding site [chemical binding]; other site 406425018860 active site 406425018861 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 406425018862 active site 406425018863 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425018864 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 406425018865 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 406425018866 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 406425018867 active site residues [active] 406425018868 dimer interface [polypeptide binding]; other site 406425018869 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 406425018870 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 406425018871 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425018872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425018873 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 406425018874 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 406425018875 active site 406425018876 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 406425018877 AMP-binding enzyme; Region: AMP-binding; cl15778 406425018878 AMP-binding enzyme; Region: AMP-binding; cl15778 406425018879 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 406425018880 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425018881 tetrameric interface [polypeptide binding]; other site 406425018882 NAD binding site [chemical binding]; other site 406425018883 catalytic residues [active] 406425018884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425018885 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 406425018886 enoyl-CoA hydratase; Provisional; Region: PRK09076 406425018887 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425018888 substrate binding site [chemical binding]; other site 406425018889 oxyanion hole (OAH) forming residues; other site 406425018890 trimer interface [polypeptide binding]; other site 406425018891 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 406425018892 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425018893 substrate binding site [chemical binding]; other site 406425018894 oxyanion hole (OAH) forming residues; other site 406425018895 trimer interface [polypeptide binding]; other site 406425018896 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 406425018897 transcriptional regulator; Provisional; Region: PRK10632 406425018898 Helix-turn-helix domains; Region: HTH; cl00088 406425018899 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 406425018900 putative effector binding pocket; other site 406425018901 putative dimerization interface [polypeptide binding]; other site 406425018902 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425018903 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425018904 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425018905 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 406425018906 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 406425018907 Walker A/P-loop; other site 406425018908 ATP binding site [chemical binding]; other site 406425018909 Q-loop/lid; other site 406425018910 ABC transporter signature motif; other site 406425018911 Walker B; other site 406425018912 D-loop; other site 406425018913 H-loop/switch region; other site 406425018914 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 406425018915 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 406425018916 FtsX-like permease family; Region: FtsX; cl15850 406425018917 macrolide transporter subunit MacA; Provisional; Region: PRK11578 406425018918 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425018919 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425018920 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 406425018921 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425018922 non-specific DNA binding site [nucleotide binding]; other site 406425018923 salt bridge; other site 406425018924 sequence-specific DNA binding site [nucleotide binding]; other site 406425018925 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 406425018926 B1 nucleotide binding pocket [chemical binding]; other site 406425018927 B2 nucleotide binding pocket [chemical binding]; other site 406425018928 CAS motifs; other site 406425018929 active site 406425018930 Isochorismatase family; Region: Isochorismatase; pfam00857 406425018931 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 406425018932 catalytic triad [active] 406425018933 conserved cis-peptide bond; other site 406425018934 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425018935 Cupin domain; Region: Cupin_2; cl09118 406425018936 putative transposase OrfB; Reviewed; Region: PHA02517 406425018937 HTH-like domain; Region: HTH_21; pfam13276 406425018938 Integrase core domain; Region: rve; cl01316 406425018939 Integrase core domain; Region: rve_3; cl15866 406425018940 Helix-turn-helix domains; Region: HTH; cl00088 406425018941 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 406425018942 Cytochrome c; Region: Cytochrom_C; cl11414 406425018943 short chain dehydrogenase; Provisional; Region: PRK06197 406425018944 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 406425018945 putative NAD(P) binding site [chemical binding]; other site 406425018946 active site 406425018947 Glutaminase; Region: Glutaminase; cl00907 406425018948 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 406425018949 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425018950 active site 406425018951 phosphorylation site [posttranslational modification] 406425018952 intermolecular recognition site; other site 406425018953 dimerization interface [polypeptide binding]; other site 406425018954 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425018955 DNA binding site [nucleotide binding] 406425018956 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425018957 dimer interface [polypeptide binding]; other site 406425018958 phosphorylation site [posttranslational modification] 406425018959 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425018960 ATP binding site [chemical binding]; other site 406425018961 Mg2+ binding site [ion binding]; other site 406425018962 G-X-G motif; other site 406425018963 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 406425018964 active site 406425018965 nucleophile elbow; other site 406425018966 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 406425018967 Surface antigen; Region: Bac_surface_Ag; cl03097 406425018968 rod shape-determining protein MreB; Provisional; Region: PRK13930 406425018969 Cell division protein FtsA; Region: FtsA; cl11496 406425018970 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 406425018971 putative active site [active] 406425018972 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 406425018973 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 406425018974 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 406425018975 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 406425018976 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 406425018977 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425018978 Helix-turn-helix domains; Region: HTH; cl00088 406425018979 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 406425018980 putative dimerization interface [polypeptide binding]; other site 406425018981 putative substrate binding pocket [chemical binding]; other site 406425018982 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425018983 Protein of unknown function (DUF805); Region: DUF805; cl01224 406425018984 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 406425018985 Transcriptional regulators [Transcription]; Region: MarR; COG1846 406425018986 Helix-turn-helix domains; Region: HTH; cl00088 406425018987 sensor protein QseC; Provisional; Region: PRK10337 406425018988 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425018989 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425018990 dimer interface [polypeptide binding]; other site 406425018991 phosphorylation site [posttranslational modification] 406425018992 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425018993 ATP binding site [chemical binding]; other site 406425018994 Mg2+ binding site [ion binding]; other site 406425018995 G-X-G motif; other site 406425018996 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 406425018997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425018998 active site 406425018999 phosphorylation site [posttranslational modification] 406425019000 intermolecular recognition site; other site 406425019001 dimerization interface [polypeptide binding]; other site 406425019002 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019003 DNA binding site [nucleotide binding] 406425019004 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 406425019005 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425019006 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425019007 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425019008 putative active site [active] 406425019009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425019010 Coenzyme A binding pocket [chemical binding]; other site 406425019011 ankyrin-like protein; Provisional; Region: PHA03095 406425019012 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 406425019013 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425019014 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 406425019015 tetramer interface [polypeptide binding]; other site 406425019016 active site 406425019017 Mg2+/Mn2+ binding site [ion binding]; other site 406425019018 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 406425019019 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 406425019020 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 406425019021 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 406425019022 active site residue [active] 406425019023 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 406425019024 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 406425019025 conserved cys residue [active] 406425019026 Nitronate monooxygenase; Region: NMO; pfam03060 406425019027 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 406425019028 FMN binding site [chemical binding]; other site 406425019029 substrate binding site [chemical binding]; other site 406425019030 putative catalytic residue [active] 406425019031 hypothetical protein; Provisional; Region: PRK07907 406425019032 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 406425019033 metal binding site [ion binding]; metal-binding site 406425019034 putative dimer interface [polypeptide binding]; other site 406425019035 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 406425019036 TfoX N-terminal domain; Region: TfoX_N; cl01167 406425019037 Phospholipid methyltransferase; Region: PEMT; cl00763 406425019038 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 406425019039 Spore germination protein; Region: Spore_permease; cl15802 406425019040 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 406425019041 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 406425019042 Protein of unknown function, DUF488; Region: DUF488; cl01246 406425019043 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 406425019044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019045 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425019046 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425019047 non-specific DNA binding site [nucleotide binding]; other site 406425019048 salt bridge; other site 406425019049 sequence-specific DNA binding site [nucleotide binding]; other site 406425019050 Cupin domain; Region: Cupin_2; cl09118 406425019051 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 406425019052 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 406425019053 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 406425019054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019055 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425019056 Helix-turn-helix domains; Region: HTH; cl00088 406425019057 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019058 dimerization interface [polypeptide binding]; other site 406425019059 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425019060 Coenzyme A binding pocket [chemical binding]; other site 406425019061 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425019062 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 406425019063 active site 406425019064 metal binding site [ion binding]; metal-binding site 406425019065 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 406425019066 Uncharacterized conserved protein [Function unknown]; Region: COG3349 406425019067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019068 spermidine synthase; Provisional; Region: PRK03612 406425019069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 406425019070 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 406425019071 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 406425019072 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 406425019073 Short C-terminal domain; Region: SHOCT; cl01373 406425019074 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 406425019075 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 406425019076 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 406425019077 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425019078 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 406425019079 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 406425019080 active site 406425019081 nucleotide binding site [chemical binding]; other site 406425019082 HIGH motif; other site 406425019083 KMSKS motif; other site 406425019084 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 406425019085 nudix motif; other site 406425019086 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 406425019087 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 406425019088 active site 406425019089 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425019090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425019091 DNA-binding site [nucleotide binding]; DNA binding site 406425019092 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425019093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425019094 homodimer interface [polypeptide binding]; other site 406425019095 catalytic residue [active] 406425019096 EamA-like transporter family; Region: EamA; cl01037 406425019097 diaminopimelate decarboxylase; Provisional; Region: PRK11165 406425019098 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 406425019099 active site 406425019100 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 406425019101 substrate binding site [chemical binding]; other site 406425019102 catalytic residues [active] 406425019103 dimer interface [polypeptide binding]; other site 406425019104 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 406425019105 Helix-turn-helix domains; Region: HTH; cl00088 406425019106 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019107 dimerization interface [polypeptide binding]; other site 406425019108 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425019109 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425019110 Domain of unknown function (DUF305); Region: DUF305; cl15795 406425019111 phosphoglycolate phosphatase; Provisional; Region: PRK13225 406425019112 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 406425019113 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425019114 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 406425019115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425019116 Coenzyme A binding pocket [chemical binding]; other site 406425019117 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 406425019118 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 406425019119 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 406425019120 ATP synthase; Region: ATP-synt; cl00365 406425019121 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 406425019122 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 406425019123 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 406425019124 acetate kinase; Region: ackA; TIGR00016 406425019125 Acetokinase family; Region: Acetate_kinase; cl01029 406425019126 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 406425019127 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 406425019128 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 406425019129 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 406425019130 NAD binding site [chemical binding]; other site 406425019131 homotetramer interface [polypeptide binding]; other site 406425019132 homodimer interface [polypeptide binding]; other site 406425019133 substrate binding site [chemical binding]; other site 406425019134 active site 406425019135 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 406425019136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019137 putative transporter; Provisional; Region: PRK10504 406425019138 putative substrate translocation pore; other site 406425019139 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 406425019140 Helix-turn-helix domains; Region: HTH; cl00088 406425019141 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 406425019142 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 406425019143 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 406425019144 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 406425019145 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425019146 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425019147 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425019148 DNA binding residues [nucleotide binding] 406425019149 dimerization interface [polypeptide binding]; other site 406425019150 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425019151 Helix-turn-helix domains; Region: HTH; cl00088 406425019152 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 406425019153 FHIPEP family; Region: FHIPEP; pfam00771 406425019154 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 406425019155 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 406425019156 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425019157 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425019158 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425019159 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 406425019160 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 406425019161 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 406425019162 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 406425019163 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 406425019164 type III secretion system protein; Reviewed; Region: PRK06937 406425019165 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425019166 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 406425019167 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 406425019168 Walker A motif/ATP binding site; other site 406425019169 Walker B motif; other site 406425019170 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 406425019171 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 406425019172 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 406425019173 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 406425019174 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 406425019175 active site 406425019176 dimer interface [polypeptide binding]; other site 406425019177 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 406425019178 Ligand Binding Site [chemical binding]; other site 406425019179 Molecular Tunnel; other site 406425019180 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 406425019181 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 406425019182 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425019183 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425019184 catalytic residue [active] 406425019185 FliP family; Region: FliP; cl00593 406425019186 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 406425019187 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425019188 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019189 DNA binding site [nucleotide binding] 406425019190 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425019191 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 406425019192 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425019193 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425019194 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 406425019195 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425019196 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425019197 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425019198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019199 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 406425019200 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 406425019201 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425019202 Walker A motif; other site 406425019203 ATP binding site [chemical binding]; other site 406425019204 Walker B motif; other site 406425019205 arginine finger; other site 406425019206 Helix-turn-helix domains; Region: HTH; cl00088 406425019207 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425019208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 406425019209 active site 406425019210 phosphorylation site [posttranslational modification] 406425019211 intermolecular recognition site; other site 406425019212 dimerization interface [polypeptide binding]; other site 406425019213 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425019214 DNA binding residues [nucleotide binding] 406425019215 dimerization interface [polypeptide binding]; other site 406425019216 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 406425019217 Cache domain; Region: Cache_2; cl07034 406425019218 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425019219 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425019220 dimer interface [polypeptide binding]; other site 406425019221 putative CheW interface [polypeptide binding]; other site 406425019222 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 406425019223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019224 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 406425019225 Cupin domain; Region: Cupin_2; cl09118 406425019226 Helix-turn-helix domain; Region: HTH_18; pfam12833 406425019227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019228 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 406425019229 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425019230 putative ligand binding site [chemical binding]; other site 406425019231 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 406425019232 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425019233 Walker A/P-loop; other site 406425019234 ATP binding site [chemical binding]; other site 406425019235 Q-loop/lid; other site 406425019236 ABC transporter signature motif; other site 406425019237 Walker B; other site 406425019238 D-loop; other site 406425019239 H-loop/switch region; other site 406425019240 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 406425019241 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 406425019242 TM-ABC transporter signature motif; other site 406425019243 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425019244 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 406425019245 putative NAD(P) binding site [chemical binding]; other site 406425019246 catalytic Zn binding site [ion binding]; other site 406425019247 structural Zn binding site [ion binding]; other site 406425019248 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 406425019249 uncharacterized xylulose kinase-like proteins, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 406425019250 N- and C-terminal domain interface [polypeptide binding]; other site 406425019251 putative active site [active] 406425019252 catalytic site [active] 406425019253 metal binding site [ion binding]; metal-binding site 406425019254 putative xylulose binding site [chemical binding]; other site 406425019255 putative ATP binding site [chemical binding]; other site 406425019256 putative homodimer interface [polypeptide binding]; other site 406425019257 short chain dehydrogenase; Provisional; Region: PRK07060 406425019258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019259 NAD(P) binding site [chemical binding]; other site 406425019260 active site 406425019261 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 406425019262 metal-binding site 406425019263 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 406425019264 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 406425019265 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425019266 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 406425019267 Sel1 repeat; Region: Sel1; cl02723 406425019268 Sel1 repeat; Region: Sel1; cl02723 406425019269 Sel1 repeat; Region: Sel1; cl02723 406425019270 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 406425019271 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425019272 N-terminal plug; other site 406425019273 ligand-binding site [chemical binding]; other site 406425019274 aspartate carbamoyltransferase; Provisional; Region: PRK11891 406425019275 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 406425019276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019277 Entericidin EcnA/B family; Region: Entericidin; cl02322 406425019278 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 406425019279 EamA-like transporter family; Region: EamA; cl01037 406425019280 EamA-like transporter family; Region: EamA; cl01037 406425019281 Cupin domain; Region: Cupin_2; cl09118 406425019282 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425019283 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 406425019284 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 406425019285 classical (c) SDRs; Region: SDR_c; cd05233 406425019286 NAD(P) binding site [chemical binding]; other site 406425019287 active site 406425019288 Probable dihydrodipicolinate reductase; Region: PLN02775 406425019289 short chain dehydrogenase; Provisional; Region: PRK12828 406425019290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019291 NAD(P) binding site [chemical binding]; other site 406425019292 active site 406425019293 DNA-binding response regulator CreB; Provisional; Region: PRK11083 406425019294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019295 active site 406425019296 phosphorylation site [posttranslational modification] 406425019297 intermolecular recognition site; other site 406425019298 dimerization interface [polypeptide binding]; other site 406425019299 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019300 DNA binding site [nucleotide binding] 406425019301 sensory histidine kinase CreC; Provisional; Region: PRK11100 406425019302 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425019303 dimerization interface [polypeptide binding]; other site 406425019304 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425019305 dimer interface [polypeptide binding]; other site 406425019306 phosphorylation site [posttranslational modification] 406425019307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425019308 ATP binding site [chemical binding]; other site 406425019309 Mg2+ binding site [ion binding]; other site 406425019310 G-X-G motif; other site 406425019311 Inner membrane protein CreD; Region: CreD; cl01844 406425019312 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 406425019313 homotrimer interaction site [polypeptide binding]; other site 406425019314 putative active site [active] 406425019315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019316 putative substrate translocation pore; other site 406425019317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019318 Helix-turn-helix domains; Region: HTH; cl00088 406425019319 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019320 dimerization interface [polypeptide binding]; other site 406425019321 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019322 Helix-turn-helix domains; Region: HTH; cl00088 406425019323 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425019324 putative effector binding pocket; other site 406425019325 dimerization interface [polypeptide binding]; other site 406425019326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019327 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 406425019328 NAD(P) binding site [chemical binding]; other site 406425019329 active site 406425019330 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 406425019331 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019332 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425019333 putative substrate translocation pore; other site 406425019334 carbamoyl-phosphate synthase; Region: PLN02735 406425019335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019336 Helix-turn-helix domains; Region: HTH; cl00088 406425019337 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425019338 dimerization interface [polypeptide binding]; other site 406425019339 classical (c) SDRs; Region: SDR_c; cd05233 406425019340 NAD(P) binding site [chemical binding]; other site 406425019341 active site 406425019342 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 406425019343 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425019344 DNA binding residues [nucleotide binding] 406425019345 dimerization interface [polypeptide binding]; other site 406425019346 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425019347 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425019348 NAD(P) binding site [chemical binding]; other site 406425019349 catalytic residues [active] 406425019350 hypothetical protein; Provisional; Region: PRK07481 406425019351 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 406425019352 inhibitor-cofactor binding pocket; inhibition site 406425019353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425019354 catalytic residue [active] 406425019355 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 406425019356 Spore germination protein; Region: Spore_permease; cl15802 406425019357 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 406425019358 transcriptional regulator EutR; Provisional; Region: PRK10130 406425019359 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019360 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019361 trimer interface [polypeptide binding]; other site 406425019362 eyelet of channel; other site 406425019363 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019364 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425019365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425019366 dimer interface [polypeptide binding]; other site 406425019367 conserved gate region; other site 406425019368 putative PBP binding loops; other site 406425019369 ABC-ATPase subunit interface; other site 406425019370 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425019371 dimer interface [polypeptide binding]; other site 406425019372 conserved gate region; other site 406425019373 putative PBP binding loops; other site 406425019374 ABC-ATPase subunit interface; other site 406425019375 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 406425019376 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 406425019377 putative dimerization interface [polypeptide binding]; other site 406425019378 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 406425019379 putative ligand binding site [chemical binding]; other site 406425019380 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 406425019381 active site 406425019382 catalytic site [active] 406425019383 putative metal binding site [ion binding]; other site 406425019384 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 406425019385 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425019386 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425019387 Predicted acetyltransferase [General function prediction only]; Region: COG3153 406425019388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425019389 Coenzyme A binding pocket [chemical binding]; other site 406425019390 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425019391 Helix-turn-helix domains; Region: HTH; cl00088 406425019392 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425019393 dimerization interface [polypeptide binding]; other site 406425019394 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425019395 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425019396 metal binding site [ion binding]; metal-binding site 406425019397 putative dimer interface [polypeptide binding]; other site 406425019398 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019399 trimer interface [polypeptide binding]; other site 406425019400 eyelet of channel; other site 406425019401 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019402 citrate-proton symporter; Provisional; Region: PRK15075 406425019403 putative substrate translocation pore; other site 406425019404 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 406425019405 FMN binding site [chemical binding]; other site 406425019406 active site 406425019407 substrate binding site [chemical binding]; other site 406425019408 catalytic residue [active] 406425019409 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425019410 dimerization interface [polypeptide binding]; other site 406425019411 putative DNA binding site [nucleotide binding]; other site 406425019412 putative Zn2+ binding site [ion binding]; other site 406425019413 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 406425019414 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425019415 motif II; other site 406425019416 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 406425019417 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425019418 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 406425019419 active site 406425019420 metal binding site [ion binding]; metal-binding site 406425019421 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 406425019422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425019423 dimer interface [polypeptide binding]; other site 406425019424 conserved gate region; other site 406425019425 putative PBP binding loops; other site 406425019426 ABC-ATPase subunit interface; other site 406425019427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 406425019428 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 406425019429 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 406425019430 Walker A/P-loop; other site 406425019431 ATP binding site [chemical binding]; other site 406425019432 Q-loop/lid; other site 406425019433 ABC transporter signature motif; other site 406425019434 Walker B; other site 406425019435 D-loop; other site 406425019436 H-loop/switch region; other site 406425019437 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 406425019438 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425019439 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425019440 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425019441 putative active site [active] 406425019442 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 406425019443 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 406425019444 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 406425019445 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 406425019446 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425019447 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 406425019448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019449 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425019450 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 406425019451 Helix-turn-helix domains; Region: HTH; cl00088 406425019452 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425019453 Helix-turn-helix domains; Region: HTH; cl00088 406425019454 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425019455 dimerization interface [polypeptide binding]; other site 406425019456 substrate binding pocket [chemical binding]; other site 406425019457 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 406425019458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019459 NAD(P) binding site [chemical binding]; other site 406425019460 active site 406425019461 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 406425019462 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 406425019463 DNA binding residues [nucleotide binding] 406425019464 dimer interface [polypeptide binding]; other site 406425019465 [2Fe-2S] cluster binding site [ion binding]; other site 406425019466 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425019467 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425019468 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425019469 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 406425019470 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425019471 Helix-turn-helix domains; Region: HTH; cl00088 406425019472 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 406425019473 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 406425019474 C-terminal domain interface [polypeptide binding]; other site 406425019475 GSH binding site (G-site) [chemical binding]; other site 406425019476 dimer interface [polypeptide binding]; other site 406425019477 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 406425019478 N-terminal domain interface [polypeptide binding]; other site 406425019479 dimer interface [polypeptide binding]; other site 406425019480 substrate binding pocket (H-site) [chemical binding]; other site 406425019481 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019482 putative substrate translocation pore; other site 406425019483 Isochorismatase family; Region: Isochorismatase; pfam00857 406425019484 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425019485 catalytic triad [active] 406425019486 conserved cis-peptide bond; other site 406425019487 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425019488 Helix-turn-helix domains; Region: HTH; cl00088 406425019489 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019490 trimer interface [polypeptide binding]; other site 406425019491 eyelet of channel; other site 406425019492 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 406425019493 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 406425019494 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425019495 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 406425019496 FOG: CBS domain [General function prediction only]; Region: COG0517 406425019497 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 406425019498 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 406425019499 dimerization interface [polypeptide binding]; other site 406425019500 active site 406425019501 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 406425019502 active site 406425019503 DNA binding site [nucleotide binding] 406425019504 Int/Topo IB signature motif; other site 406425019505 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 406425019506 putative transposase OrfB; Reviewed; Region: PHA02517 406425019507 HTH-like domain; Region: HTH_21; pfam13276 406425019508 Integrase core domain; Region: rve; cl01316 406425019509 Integrase core domain; Region: rve_3; cl15866 406425019510 Helix-turn-helix domains; Region: HTH; cl00088 406425019511 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 406425019512 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 406425019513 Integrase core domain; Region: rve; cl01316 406425019514 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 406425019515 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 406425019516 Helix-turn-helix domains; Region: HTH; cl00088 406425019517 Helix-turn-helix domains; Region: HTH; cl00088 406425019518 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 406425019519 HTH-like domain; Region: HTH_21; pfam13276 406425019520 Integrase core domain; Region: rve; cl01316 406425019521 Integrase core domain; Region: rve_3; cl15866 406425019522 Helix-turn-helix domains; Region: HTH; cl00088 406425019523 Integrase core domain; Region: rve; cl01316 406425019524 Integrase core domain; Region: rve_3; cl15866 406425019525 H-NS histone family; Region: Histone_HNS; pfam00816 406425019526 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 406425019527 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425019528 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425019529 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 406425019530 active site 406425019531 metal binding site [ion binding]; metal-binding site 406425019532 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425019533 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 406425019534 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425019535 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 406425019536 Autoinducer binding domain; Region: Autoind_bind; pfam03472 406425019537 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425019538 DNA binding residues [nucleotide binding] 406425019539 dimerization interface [polypeptide binding]; other site 406425019540 magnesium transport protein MgtC; Provisional; Region: PRK15385 406425019541 MgtC family; Region: MgtC; pfam02308 406425019542 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 406425019543 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425019544 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 406425019545 multidrug resistance protein MdtN; Provisional; Region: PRK10476 406425019546 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425019547 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425019548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019549 Helix-turn-helix domains; Region: HTH; cl00088 406425019550 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 406425019551 putative dimerization interface [polypeptide binding]; other site 406425019552 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 406425019553 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 406425019554 putative active site [active] 406425019555 putative metal binding site [ion binding]; other site 406425019556 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 406425019557 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425019558 Helix-turn-helix domains; Region: HTH; cl00088 406425019559 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425019560 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019561 trimer interface [polypeptide binding]; other site 406425019562 eyelet of channel; other site 406425019563 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 406425019564 [2Fe-2S] cluster binding site [ion binding]; other site 406425019565 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 406425019566 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 406425019567 iron-sulfur cluster [ion binding]; other site 406425019568 [2Fe-2S] cluster binding site [ion binding]; other site 406425019569 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 406425019570 hydrophobic ligand binding site; other site 406425019571 short chain dehydrogenase; Provisional; Region: PRK12939 406425019572 classical (c) SDRs; Region: SDR_c; cd05233 406425019573 NAD(P) binding site [chemical binding]; other site 406425019574 active site 406425019575 Cupin domain; Region: Cupin_2; cl09118 406425019576 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 406425019577 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425019578 Helix-turn-helix domains; Region: HTH; cl00088 406425019579 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425019580 short chain dehydrogenase; Provisional; Region: PRK07062 406425019581 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 406425019582 putative NAD(P) binding site [chemical binding]; other site 406425019583 putative active site [active] 406425019584 hypothetical protein; Provisional; Region: PRK07064 406425019585 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 406425019586 PYR/PP interface [polypeptide binding]; other site 406425019587 dimer interface [polypeptide binding]; other site 406425019588 TPP binding site [chemical binding]; other site 406425019589 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 406425019590 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 406425019591 TPP-binding site [chemical binding]; other site 406425019592 L-aspartate dehydrogenase; Provisional; Region: PRK13303 406425019593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019594 Domain of unknown function DUF108; Region: DUF108; pfam01958 406425019595 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425019596 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 406425019597 NAD(P) binding site [chemical binding]; other site 406425019598 catalytic residues [active] 406425019599 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425019600 active site 406425019601 metal binding site [ion binding]; metal-binding site 406425019602 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 406425019603 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 406425019604 putative active site [active] 406425019605 putative metal binding site [ion binding]; other site 406425019606 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 406425019607 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425019608 benzoate transport; Region: 2A0115; TIGR00895 406425019609 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019610 putative substrate translocation pore; other site 406425019611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019612 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425019613 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425019614 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 406425019615 trimer interface [polypeptide binding]; other site 406425019616 putative Zn binding site [ion binding]; other site 406425019617 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 406425019618 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 406425019619 substrate binding site [chemical binding]; other site 406425019620 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 406425019621 substrate binding site [chemical binding]; other site 406425019622 ligand binding site [chemical binding]; other site 406425019623 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 406425019624 Uncharacterized conserved protein [Function unknown]; Region: COG4285 406425019625 conserved cys residue [active] 406425019626 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425019627 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425019628 Ligand Binding Site [chemical binding]; other site 406425019629 amidase; Provisional; Region: PRK07486 406425019630 Amidase; Region: Amidase; cl11426 406425019631 N-acetyltransferase; Region: Acetyltransf_2; cl00949 406425019632 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 406425019633 active site 406425019634 Leucine carboxyl methyltransferase; Region: LCM; cl01306 406425019635 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 406425019636 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 406425019637 active site 1 [active] 406425019638 dimer interface [polypeptide binding]; other site 406425019639 hexamer interface [polypeptide binding]; other site 406425019640 active site 2 [active] 406425019641 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 406425019642 intersubunit interface [polypeptide binding]; other site 406425019643 active site 406425019644 Zn2+ binding site [ion binding]; other site 406425019645 Urea transporter; Region: UT; cl01829 406425019646 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 406425019647 short chain dehydrogenase; Validated; Region: PRK05855 406425019648 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 406425019649 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 406425019650 short chain dehydrogenase; Provisional; Region: PRK07832 406425019651 classical (c) SDRs; Region: SDR_c; cd05233 406425019652 NAD(P) binding site [chemical binding]; other site 406425019653 active site 406425019654 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 406425019655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019656 YhhN-like protein; Region: YhhN; cl01505 406425019657 Arginase family; Region: Arginase; cl00306 406425019658 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425019659 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425019660 substrate binding pocket [chemical binding]; other site 406425019661 membrane-bound complex binding site; other site 406425019662 hinge residues; other site 406425019663 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 406425019664 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 406425019665 DNA binding residues [nucleotide binding] 406425019666 putative dimer interface [polypeptide binding]; other site 406425019667 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 406425019668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425019669 Coenzyme A binding pocket [chemical binding]; other site 406425019670 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019671 Helix-turn-helix domains; Region: HTH; cl00088 406425019672 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019673 dimerization interface [polypeptide binding]; other site 406425019674 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 406425019675 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 406425019676 NADP binding site [chemical binding]; other site 406425019677 dimer interface [polypeptide binding]; other site 406425019678 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 406425019679 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019680 putative substrate translocation pore; other site 406425019681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019682 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 406425019683 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 406425019684 dimer interface [polypeptide binding]; other site 406425019685 ligand binding site [chemical binding]; other site 406425019686 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425019687 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425019688 dimer interface [polypeptide binding]; other site 406425019689 putative CheW interface [polypeptide binding]; other site 406425019690 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 406425019691 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425019692 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 406425019693 Family description; Region: UvrD_C_2; cl15862 406425019694 BetR domain; Region: BetR; pfam08667 406425019695 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019696 active site 406425019697 phosphorylation site [posttranslational modification] 406425019698 intermolecular recognition site; other site 406425019699 dimerization interface [polypeptide binding]; other site 406425019700 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 406425019701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019702 Ion channel; Region: Ion_trans_2; cl11596 406425019703 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 406425019704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019705 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 406425019706 active site 406425019707 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 406425019708 dimer interface [polypeptide binding]; other site 406425019709 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 406425019710 Ligand Binding Site [chemical binding]; other site 406425019711 Molecular Tunnel; other site 406425019712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425019713 metal binding site [ion binding]; metal-binding site 406425019714 active site 406425019715 I-site; other site 406425019716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019717 Helix-turn-helix domains; Region: HTH; cl00088 406425019718 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019719 dimerization interface [polypeptide binding]; other site 406425019720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425019721 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 406425019722 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425019723 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 406425019724 NAD(P) binding site [chemical binding]; other site 406425019725 catalytic residues [active] 406425019726 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 406425019727 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425019728 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425019729 metal binding site [ion binding]; metal-binding site 406425019730 putative dimer interface [polypeptide binding]; other site 406425019731 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019732 H+ Antiporter protein; Region: 2A0121; TIGR00900 406425019733 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 406425019734 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425019735 substrate binding pocket [chemical binding]; other site 406425019736 membrane-bound complex binding site; other site 406425019737 hinge residues; other site 406425019738 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019739 D-galactonate transporter; Region: 2A0114; TIGR00893 406425019740 putative substrate translocation pore; other site 406425019741 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 406425019742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019743 Helix-turn-helix domains; Region: HTH; cl00088 406425019744 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 406425019745 putative dimerization interface [polypeptide binding]; other site 406425019746 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 406425019747 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 406425019748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425019750 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425019751 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 406425019752 active site 406425019753 catalytic tetrad [active] 406425019754 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 406425019755 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 406425019756 NADP binding site [chemical binding]; other site 406425019757 dimer interface [polypeptide binding]; other site 406425019758 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 406425019759 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 406425019760 putative DNA binding site [nucleotide binding]; other site 406425019761 putative Zn2+ binding site [ion binding]; other site 406425019762 AsnC family; Region: AsnC_trans_reg; pfam01037 406425019763 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 406425019764 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 406425019765 homodimer interface [polypeptide binding]; other site 406425019766 substrate-cofactor binding pocket; other site 406425019767 catalytic residue [active] 406425019768 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 406425019769 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 406425019770 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 406425019771 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 406425019772 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 406425019773 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 406425019774 motif II; other site 406425019775 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 406425019776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019777 putative substrate translocation pore; other site 406425019778 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019779 Response regulator receiver domain; Region: Response_reg; pfam00072 406425019780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019781 active site 406425019782 phosphorylation site [posttranslational modification] 406425019783 intermolecular recognition site; other site 406425019784 dimerization interface [polypeptide binding]; other site 406425019785 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425019786 DNA binding residues [nucleotide binding] 406425019787 dimerization interface [polypeptide binding]; other site 406425019788 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 406425019789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 406425019790 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425019791 dimer interface [polypeptide binding]; other site 406425019792 phosphorylation site [posttranslational modification] 406425019793 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425019794 ATP binding site [chemical binding]; other site 406425019795 Mg2+ binding site [ion binding]; other site 406425019796 G-X-G motif; other site 406425019797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019798 active site 406425019799 phosphorylation site [posttranslational modification] 406425019800 intermolecular recognition site; other site 406425019801 dimerization interface [polypeptide binding]; other site 406425019802 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 406425019803 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425019804 putative ligand binding site [chemical binding]; other site 406425019805 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425019806 TM-ABC transporter signature motif; other site 406425019807 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425019808 TM-ABC transporter signature motif; other site 406425019809 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 406425019810 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425019811 Walker A/P-loop; other site 406425019812 ATP binding site [chemical binding]; other site 406425019813 Q-loop/lid; other site 406425019814 ABC transporter signature motif; other site 406425019815 Walker B; other site 406425019816 D-loop; other site 406425019817 H-loop/switch region; other site 406425019818 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 406425019819 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425019820 Walker A/P-loop; other site 406425019821 ATP binding site [chemical binding]; other site 406425019822 Q-loop/lid; other site 406425019823 ABC transporter signature motif; other site 406425019824 Walker B; other site 406425019825 D-loop; other site 406425019826 H-loop/switch region; other site 406425019827 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 406425019828 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 406425019829 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 406425019830 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 406425019831 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425019832 multimer interface [polypeptide binding]; other site 406425019833 active site 406425019834 catalytic triad [active] 406425019835 dimer interface [polypeptide binding]; other site 406425019836 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019837 trimer interface [polypeptide binding]; other site 406425019838 eyelet of channel; other site 406425019839 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425019840 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425019841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019842 active site 406425019843 phosphorylation site [posttranslational modification] 406425019844 intermolecular recognition site; other site 406425019845 dimerization interface [polypeptide binding]; other site 406425019846 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019847 DNA binding site [nucleotide binding] 406425019848 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425019849 dimerization interface [polypeptide binding]; other site 406425019850 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 406425019851 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425019852 ATP binding site [chemical binding]; other site 406425019853 Mg2+ binding site [ion binding]; other site 406425019854 G-X-G motif; other site 406425019855 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425019856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019857 active site 406425019858 phosphorylation site [posttranslational modification] 406425019859 intermolecular recognition site; other site 406425019860 dimerization interface [polypeptide binding]; other site 406425019861 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019862 DNA binding site [nucleotide binding] 406425019863 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425019864 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019865 trimer interface [polypeptide binding]; other site 406425019866 eyelet of channel; other site 406425019867 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 406425019868 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 406425019869 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 406425019870 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 406425019871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425019872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425019873 active site 406425019874 phosphorylation site [posttranslational modification] 406425019875 intermolecular recognition site; other site 406425019876 dimerization interface [polypeptide binding]; other site 406425019877 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425019878 DNA binding site [nucleotide binding] 406425019879 transcriptional regulator; Provisional; Region: PRK10632 406425019880 Helix-turn-helix domains; Region: HTH; cl00088 406425019881 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425019882 putative effector binding pocket; other site 406425019883 dimerization interface [polypeptide binding]; other site 406425019884 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 406425019885 classical (c) SDRs; Region: SDR_c; cd05233 406425019886 NAD(P) binding site [chemical binding]; other site 406425019887 active site 406425019888 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425019889 Cytochrome c; Region: Cytochrom_C; cl11414 406425019890 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 406425019891 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425019892 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425019893 Predicted esterase [General function prediction only]; Region: COG0627 406425019894 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425019895 OpgC protein; Region: OpgC_C; cl00792 406425019896 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425019897 trimer interface [polypeptide binding]; other site 406425019898 eyelet of channel; other site 406425019899 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019900 Helix-turn-helix domains; Region: HTH; cl00088 406425019901 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 406425019902 putative effector binding pocket; other site 406425019903 putative dimerization interface [polypeptide binding]; other site 406425019904 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425019905 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425019906 active site 406425019907 catalytic tetrad [active] 406425019908 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 406425019909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019910 Helix-turn-helix domains; Region: HTH; cl00088 406425019911 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 406425019912 putative dimerization interface [polypeptide binding]; other site 406425019913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 406425019914 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 406425019915 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425019916 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 406425019917 Helix-turn-helix domains; Region: HTH; cl00088 406425019918 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 406425019919 substrate binding pocket [chemical binding]; other site 406425019920 dimerization interface [polypeptide binding]; other site 406425019921 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 406425019922 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425019923 Walker A/P-loop; other site 406425019924 ATP binding site [chemical binding]; other site 406425019925 Q-loop/lid; other site 406425019926 ABC transporter signature motif; other site 406425019927 Walker B; other site 406425019928 D-loop; other site 406425019929 H-loop/switch region; other site 406425019930 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 406425019931 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 406425019932 Walker A/P-loop; other site 406425019933 ATP binding site [chemical binding]; other site 406425019934 Q-loop/lid; other site 406425019935 ABC transporter signature motif; other site 406425019936 Walker B; other site 406425019937 D-loop; other site 406425019938 H-loop/switch region; other site 406425019939 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 406425019940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425019941 dimer interface [polypeptide binding]; other site 406425019942 conserved gate region; other site 406425019943 putative PBP binding loops; other site 406425019944 ABC-ATPase subunit interface; other site 406425019945 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 406425019946 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425019947 dimer interface [polypeptide binding]; other site 406425019948 conserved gate region; other site 406425019949 putative PBP binding loops; other site 406425019950 ABC-ATPase subunit interface; other site 406425019951 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 406425019952 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425019953 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 406425019954 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 406425019955 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 406425019956 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 406425019957 putative active site [active] 406425019958 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 406425019959 Cupin domain; Region: Cupin_2; cl09118 406425019960 Cupin domain; Region: Cupin_2; cl09118 406425019961 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 406425019962 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 406425019963 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 406425019964 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 406425019965 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425019966 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019967 putative substrate translocation pore; other site 406425019968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425019969 LysR family transcriptional regulator; Provisional; Region: PRK14997 406425019970 Helix-turn-helix domains; Region: HTH; cl00088 406425019971 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425019972 putative effector binding pocket; other site 406425019973 dimerization interface [polypeptide binding]; other site 406425019974 Fusaric acid resistance protein family; Region: FUSC; pfam04632 406425019975 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 406425019976 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 406425019977 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 406425019978 putative molybdopterin cofactor binding site [chemical binding]; other site 406425019979 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 406425019980 putative molybdopterin cofactor binding site; other site 406425019981 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425019982 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425019983 DNA-binding site [nucleotide binding]; DNA binding site 406425019984 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425019985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425019986 homodimer interface [polypeptide binding]; other site 406425019987 catalytic residue [active] 406425019988 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 406425019989 Mechanosensitive ion channel; Region: MS_channel; pfam00924 406425019990 Sulfate transporter family; Region: Sulfate_transp; cl15842 406425019991 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 406425019992 Sulfate transporter family; Region: Sulfate_transp; cl15842 406425019993 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 406425019994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425019995 Helix-turn-helix domains; Region: HTH; cl00088 406425019996 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425019997 dimerization interface [polypeptide binding]; other site 406425019998 LysE type translocator; Region: LysE; cl00565 406425019999 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020000 putative substrate translocation pore; other site 406425020001 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 406425020002 Isochorismatase family; Region: Isochorismatase; pfam00857 406425020003 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 406425020004 catalytic triad [active] 406425020005 conserved cis-peptide bond; other site 406425020006 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425020007 Helix-turn-helix domains; Region: HTH; cl00088 406425020008 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425020009 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 406425020010 Helix-turn-helix domains; Region: HTH; cl00088 406425020011 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 406425020012 dimerization interface [polypeptide binding]; other site 406425020013 substrate binding pocket [chemical binding]; other site 406425020014 magnesium-transporting ATPase; Provisional; Region: PRK15122 406425020015 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 406425020016 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 406425020017 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 406425020018 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 406425020019 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 406425020020 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 406425020021 active site 406425020022 catalytic triad [active] 406425020023 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425020024 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425020025 substrate binding pocket [chemical binding]; other site 406425020026 membrane-bound complex binding site; other site 406425020027 hinge residues; other site 406425020028 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 406425020029 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020030 putative substrate translocation pore; other site 406425020031 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 406425020032 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425020033 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 406425020034 Transglycosylase; Region: Transgly; cl07896 406425020035 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425020036 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 406425020037 Bacterial Ig-like domain; Region: Big_5; cl01012 406425020038 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 406425020039 MG2 domain; Region: A2M_N; pfam01835 406425020040 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 406425020041 Alpha-2-macroglobulin family; Region: A2M; pfam00207 406425020042 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 406425020043 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 406425020044 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 406425020045 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425020046 Cytochrome c; Region: Cytochrom_C; cl11414 406425020047 DoxX; Region: DoxX; cl00976 406425020048 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020049 trimer interface [polypeptide binding]; other site 406425020050 eyelet of channel; other site 406425020051 Isochorismatase family; Region: Isochorismatase; pfam00857 406425020052 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 406425020053 catalytic triad [active] 406425020054 conserved cis-peptide bond; other site 406425020055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020056 metabolite-proton symporter; Region: 2A0106; TIGR00883 406425020057 putative substrate translocation pore; other site 406425020058 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 406425020059 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 406425020060 metal binding site [ion binding]; metal-binding site 406425020061 putative dimer interface [polypeptide binding]; other site 406425020062 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 406425020063 Helix-turn-helix domains; Region: HTH; cl00088 406425020064 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020065 dimerization interface [polypeptide binding]; other site 406425020066 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 406425020067 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 406425020068 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 406425020069 Cl- selectivity filter; other site 406425020070 Cl- binding residues [ion binding]; other site 406425020071 pore gating glutamate residue; other site 406425020072 dimer interface [polypeptide binding]; other site 406425020073 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 406425020074 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425020075 Helix-turn-helix domains; Region: HTH; cl00088 406425020076 Helix-turn-helix domains; Region: HTH; cl00088 406425020077 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 406425020078 HPP family; Region: HPP; pfam04982 406425020079 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 406425020080 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 406425020081 transcriptional regulator; Provisional; Region: PRK10632 406425020082 Helix-turn-helix domains; Region: HTH; cl00088 406425020083 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 406425020084 putative effector binding pocket; other site 406425020085 dimerization interface [polypeptide binding]; other site 406425020086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020087 D-galactonate transporter; Region: 2A0114; TIGR00893 406425020088 putative substrate translocation pore; other site 406425020089 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 406425020090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020091 Helix-turn-helix domains; Region: HTH; cl00088 406425020092 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020093 dimerization interface [polypeptide binding]; other site 406425020094 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 406425020095 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 406425020096 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 406425020097 DctM-like transporters; Region: DctM; pfam06808 406425020098 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 406425020099 Transcriptional regulators [Transcription]; Region: PurR; COG1609 406425020100 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 406425020101 DNA binding site [nucleotide binding] 406425020102 domain linker motif; other site 406425020103 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_10; cd06292 406425020104 putative dimerization interface [polypeptide binding]; other site 406425020105 putative ligand binding site [chemical binding]; other site 406425020106 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 406425020107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020108 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 406425020109 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 406425020110 active site 406425020111 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 406425020112 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 406425020113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020114 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425020115 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 406425020116 AMP-binding enzyme; Region: AMP-binding; cl15778 406425020117 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 406425020118 enoyl-CoA hydratase; Provisional; Region: PRK05995 406425020119 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 406425020120 substrate binding site [chemical binding]; other site 406425020121 oxyanion hole (OAH) forming residues; other site 406425020122 trimer interface [polypeptide binding]; other site 406425020123 MarC family integral membrane protein; Region: MarC; cl00919 406425020124 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 406425020125 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 406425020126 active site 406425020127 catalytic tetrad [active] 406425020128 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 406425020129 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 406425020130 putative NAD(P) binding site [chemical binding]; other site 406425020131 catalytic Zn binding site [ion binding]; other site 406425020132 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425020133 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 406425020134 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 406425020135 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 406425020136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425020137 Coenzyme A binding pocket [chemical binding]; other site 406425020138 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425020139 DNA-binding site [nucleotide binding]; DNA binding site 406425020140 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425020141 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425020142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425020143 homodimer interface [polypeptide binding]; other site 406425020144 catalytic residue [active] 406425020145 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 406425020146 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 406425020147 protein binding site [polypeptide binding]; other site 406425020148 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 406425020149 protein binding site [polypeptide binding]; other site 406425020150 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020151 putative substrate translocation pore; other site 406425020152 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 406425020153 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 406425020154 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425020155 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 406425020156 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 406425020157 putative uracil binding site [chemical binding]; other site 406425020158 putative active site [active] 406425020159 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 406425020160 NMT1-like family; Region: NMT1_2; cl15260 406425020161 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 406425020162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020163 active site 406425020164 phosphorylation site [posttranslational modification] 406425020165 intermolecular recognition site; other site 406425020166 dimerization interface [polypeptide binding]; other site 406425020167 ANTAR domain; Region: ANTAR; cl04297 406425020168 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 406425020169 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 406425020170 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020171 putative substrate translocation pore; other site 406425020172 nitrite reductase subunit NirD; Provisional; Region: PRK14989 406425020173 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 406425020174 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 406425020175 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425020176 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 406425020177 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 406425020178 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 406425020179 [4Fe-4S] binding site [ion binding]; other site 406425020180 molybdopterin cofactor binding site; other site 406425020181 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 406425020182 molybdopterin cofactor binding site; other site 406425020183 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 406425020184 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 406425020185 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 406425020186 FAD binding pocket [chemical binding]; other site 406425020187 FAD binding motif [chemical binding]; other site 406425020188 catalytic residues [active] 406425020189 NAD binding pocket [chemical binding]; other site 406425020190 phosphate binding motif [ion binding]; other site 406425020191 beta-alpha-beta structure motif; other site 406425020192 short chain dehydrogenase; Provisional; Region: PRK09291 406425020193 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 406425020194 NADP binding site [chemical binding]; other site 406425020195 active site 406425020196 steroid binding site; other site 406425020197 Domain of unknown function (DUF336); Region: DUF336; cl01249 406425020198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 406425020199 Helix-turn-helix domains; Region: HTH; cl00088 406425020200 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 406425020201 putative effector binding pocket; other site 406425020202 putative dimerization interface [polypeptide binding]; other site 406425020203 Predicted integral membrane protein [Function unknown]; Region: COG0392 406425020204 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 406425020205 Uncharacterized conserved protein [Function unknown]; Region: COG2898 406425020206 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 406425020207 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 406425020208 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 406425020209 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 406425020210 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 406425020211 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425020212 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 406425020213 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 406425020214 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425020215 DNA-binding site [nucleotide binding]; DNA binding site 406425020216 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425020217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425020218 homodimer interface [polypeptide binding]; other site 406425020219 catalytic residue [active] 406425020220 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020221 D-galactonate transporter; Region: 2A0114; TIGR00893 406425020222 putative substrate translocation pore; other site 406425020223 mannonate dehydratase; Provisional; Region: PRK03906 406425020224 mannonate dehydratase; Region: uxuA; TIGR00695 406425020225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425020226 DNA-binding site [nucleotide binding]; DNA binding site 406425020227 FCD domain; Region: FCD; cl11656 406425020228 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 406425020229 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 406425020230 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 406425020231 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425020232 metal binding site [ion binding]; metal-binding site 406425020233 active site 406425020234 I-site; other site 406425020235 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425020236 transcriptional regulator, ArgP family; Region: argP; TIGR03298 406425020237 Helix-turn-helix domains; Region: HTH; cl00088 406425020238 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 406425020239 dimerization interface [polypeptide binding]; other site 406425020240 LysE type translocator; Region: LysE; cl00565 406425020241 aromatic amino acid exporter; Provisional; Region: PRK11689 406425020242 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 406425020243 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 406425020244 active site 406425020245 metal binding site [ion binding]; metal-binding site 406425020246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 406425020247 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 406425020248 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 406425020249 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 406425020250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 406425020251 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 406425020252 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 406425020253 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 406425020254 Int/Topo IB signature motif; other site 406425020255 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 406425020256 putative transporter; Provisional; Region: PRK10504 406425020257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020258 putative substrate translocation pore; other site 406425020259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020260 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425020261 OpgC protein; Region: OpgC_C; cl00792 406425020262 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 406425020263 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 406425020264 oligomeric interface; other site 406425020265 putative active site [active] 406425020266 homodimer interface [polypeptide binding]; other site 406425020267 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 406425020268 DNA-binding site [nucleotide binding]; DNA binding site 406425020269 RNA-binding motif; other site 406425020270 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 406425020271 rRNA binding site [nucleotide binding]; other site 406425020272 predicted 30S ribosome binding site; other site 406425020273 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425020274 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 406425020275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020276 putative substrate translocation pore; other site 406425020277 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 406425020278 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 406425020279 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 406425020280 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 406425020281 Helix-turn-helix domains; Region: HTH; cl00088 406425020282 AsnC family; Region: AsnC_trans_reg; pfam01037 406425020283 LysE type translocator; Region: LysE; cl00565 406425020284 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425020285 WHG domain; Region: WHG; pfam13305 406425020286 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 406425020287 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425020288 N-terminal plug; other site 406425020289 ligand-binding site [chemical binding]; other site 406425020290 serine racemase; Region: PLN02970 406425020291 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 406425020292 tetramer interface [polypeptide binding]; other site 406425020293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425020294 catalytic residue [active] 406425020295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 406425020296 YheO-like PAS domain; Region: PAS_6; pfam08348 406425020297 Helix-turn-helix domains; Region: HTH; cl00088 406425020298 Uncharacterized conserved protein [Function unknown]; Region: COG3760 406425020299 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 406425020300 putative deacylase active site [active] 406425020301 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 406425020302 tetramer interface [polypeptide binding]; other site 406425020303 active site 406425020304 Mg2+/Mn2+ binding site [ion binding]; other site 406425020305 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 406425020306 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 406425020307 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 406425020308 active site 406425020309 substrate-binding site [chemical binding]; other site 406425020310 metal-binding site [ion binding] 406425020311 GTP binding site [chemical binding]; other site 406425020312 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 406425020313 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425020314 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 406425020315 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425020316 Walker A motif; other site 406425020317 ATP binding site [chemical binding]; other site 406425020318 Walker B motif; other site 406425020319 arginine finger; other site 406425020320 Peptidase family M41; Region: Peptidase_M41; pfam01434 406425020321 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 406425020322 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 406425020323 active site 406425020324 homotetramer interface [polypeptide binding]; other site 406425020325 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425020326 dimerization interface [polypeptide binding]; other site 406425020327 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425020328 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425020329 dimer interface [polypeptide binding]; other site 406425020330 putative CheW interface [polypeptide binding]; other site 406425020331 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 406425020332 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 406425020333 N-terminal plug; other site 406425020334 ligand-binding site [chemical binding]; other site 406425020335 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 406425020336 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 406425020337 NAD binding site [chemical binding]; other site 406425020338 substrate binding site [chemical binding]; other site 406425020339 catalytic Zn binding site [ion binding]; other site 406425020340 tetramer interface [polypeptide binding]; other site 406425020341 structural Zn binding site [ion binding]; other site 406425020342 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 406425020343 Asp-box motif; other site 406425020344 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 406425020345 Helix-turn-helix domains; Region: HTH; cl00088 406425020346 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 406425020347 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425020348 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 406425020349 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425020350 substrate binding pocket [chemical binding]; other site 406425020351 membrane-bound complex binding site; other site 406425020352 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 406425020353 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 406425020354 dimer interface [polypeptide binding]; other site 406425020355 active site 406425020356 non-prolyl cis peptide bond; other site 406425020357 insertion regions; other site 406425020358 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425020359 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425020360 substrate binding pocket [chemical binding]; other site 406425020361 membrane-bound complex binding site; other site 406425020362 hinge residues; other site 406425020363 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 406425020364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020365 dimer interface [polypeptide binding]; other site 406425020366 conserved gate region; other site 406425020367 putative PBP binding loops; other site 406425020368 ABC-ATPase subunit interface; other site 406425020369 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425020370 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425020371 Walker A/P-loop; other site 406425020372 ATP binding site [chemical binding]; other site 406425020373 Q-loop/lid; other site 406425020374 ABC transporter signature motif; other site 406425020375 Walker B; other site 406425020376 D-loop; other site 406425020377 H-loop/switch region; other site 406425020378 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 406425020379 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 406425020380 active site 406425020381 non-prolyl cis peptide bond; other site 406425020382 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 406425020383 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 406425020384 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425020385 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425020386 substrate binding pocket [chemical binding]; other site 406425020387 membrane-bound complex binding site; other site 406425020388 hinge residues; other site 406425020389 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 406425020390 Coenzyme A binding pocket [chemical binding]; other site 406425020391 Putative exonuclease, RdgC; Region: RdgC; cl01122 406425020392 Double zinc ribbon; Region: DZR; pfam12773 406425020393 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 406425020394 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 406425020395 putative active site [active] 406425020396 Zn binding site [ion binding]; other site 406425020397 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425020398 PAS fold; Region: PAS_7; pfam12860 406425020399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 406425020400 metal binding site [ion binding]; metal-binding site 406425020401 active site 406425020402 I-site; other site 406425020403 Probable transposase; Region: OrfB_IS605; pfam01385 406425020404 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 406425020405 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425020406 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425020407 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425020408 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425020409 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425020410 Cytochrome c; Region: Cytochrom_C; cl11414 406425020411 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 406425020412 ligand binding site [chemical binding]; other site 406425020413 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 406425020414 trimer interface [polypeptide binding]; other site 406425020415 eyelet of channel; other site 406425020416 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 406425020417 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 406425020418 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 406425020419 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 406425020420 N-acetyl-D-glucosamine binding site [chemical binding]; other site 406425020421 catalytic residue [active] 406425020422 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 406425020423 ligand-binding site [chemical binding]; other site 406425020424 TIGR03032 family protein; Region: TIGR03032 406425020425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020426 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 406425020427 Predicted amidohydrolase [General function prediction only]; Region: COG0388 406425020428 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 406425020429 putative active site [active] 406425020430 catalytic triad [active] 406425020431 putative dimer interface [polypeptide binding]; other site 406425020432 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425020433 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 406425020434 putative ligand binding site [chemical binding]; other site 406425020435 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 406425020436 TM-ABC transporter signature motif; other site 406425020437 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 406425020438 TM-ABC transporter signature motif; other site 406425020439 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 406425020440 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 406425020441 Walker A/P-loop; other site 406425020442 ATP binding site [chemical binding]; other site 406425020443 Q-loop/lid; other site 406425020444 ABC transporter signature motif; other site 406425020445 Walker B; other site 406425020446 D-loop; other site 406425020447 H-loop/switch region; other site 406425020448 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 406425020449 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 406425020450 Walker A/P-loop; other site 406425020451 ATP binding site [chemical binding]; other site 406425020452 Q-loop/lid; other site 406425020453 ABC transporter signature motif; other site 406425020454 Walker B; other site 406425020455 D-loop; other site 406425020456 H-loop/switch region; other site 406425020457 Amidase; Region: Amidase; cl11426 406425020458 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 406425020459 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 406425020460 ligand binding site [chemical binding]; other site 406425020461 regulator interaction site; other site 406425020462 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 406425020463 ANTAR domain; Region: ANTAR; cl04297 406425020464 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 406425020465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425020466 ATP binding site [chemical binding]; other site 406425020467 Walker B motif; other site 406425020468 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 406425020469 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 406425020470 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425020471 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 406425020472 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 406425020473 Type II/IV secretion system protein; Region: T2SE; pfam00437 406425020474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425020475 Walker A motif; other site 406425020476 ATP binding site [chemical binding]; other site 406425020477 Walker B motif; other site 406425020478 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 406425020479 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 406425020480 PilS N terminal; Region: PilS; pfam08805 406425020481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425020482 Walker A motif; other site 406425020483 ATP binding site [chemical binding]; other site 406425020484 Walker B motif; other site 406425020485 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 406425020486 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425020487 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425020488 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 406425020489 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 406425020490 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425020491 ATP binding site [chemical binding]; other site 406425020492 Mg2+ binding site [ion binding]; other site 406425020493 G-X-G motif; other site 406425020494 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 406425020495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020496 active site 406425020497 phosphorylation site [posttranslational modification] 406425020498 intermolecular recognition site; other site 406425020499 dimerization interface [polypeptide binding]; other site 406425020500 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 406425020501 DNA binding site [nucleotide binding] 406425020502 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 406425020503 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 406425020504 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 406425020505 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 406425020506 FliP family; Region: FliP; cl00593 406425020507 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 406425020508 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 406425020509 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 406425020510 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 406425020511 FHIPEP family; Region: FHIPEP; pfam00771 406425020512 type III secretion system protein HrcU; Validated; Region: PRK09108 406425020513 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 406425020514 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 406425020515 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 406425020516 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 406425020517 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 406425020518 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 406425020519 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 406425020520 type III secretion system protein HrpB; Validated; Region: PRK09098 406425020521 Flagellar assembly protein FliH; Region: FliH; pfam02108 406425020522 type III secretion system ATPase; Provisional; Region: PRK09099 406425020523 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 406425020524 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 406425020525 Walker A motif/ATP binding site; other site 406425020526 Walker B motif; other site 406425020527 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 406425020528 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 406425020529 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 406425020530 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 406425020531 substrate binding pocket [chemical binding]; other site 406425020532 Helix-turn-helix domains; Region: HTH; cl00088 406425020533 Winged helix-turn helix; Region: HTH_29; pfam13551 406425020534 Helix-turn-helix domains; Region: HTH; cl00088 406425020535 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 406425020536 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 406425020537 active site 406425020538 nucleophile elbow; other site 406425020539 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 406425020540 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 406425020541 tetramerization interface [polypeptide binding]; other site 406425020542 NAD(P) binding site [chemical binding]; other site 406425020543 catalytic residues [active] 406425020544 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 406425020545 Cytochrome c; Region: Cytochrom_C; cl11414 406425020546 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425020547 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 406425020548 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425020549 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 406425020550 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 406425020551 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 406425020552 catalytic loop [active] 406425020553 iron binding site [ion binding]; other site 406425020554 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 406425020555 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 406425020556 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 406425020557 Prostaglandin dehydrogenases; Region: PGDH; cd05288 406425020558 NAD(P) binding site [chemical binding]; other site 406425020559 substrate binding site [chemical binding]; other site 406425020560 dimer interface [polypeptide binding]; other site 406425020561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 406425020562 Helix-turn-helix domains; Region: HTH; cl00088 406425020563 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 406425020564 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 406425020565 salt bridge; other site 406425020566 non-specific DNA binding site [nucleotide binding]; other site 406425020567 sequence-specific DNA binding site [nucleotide binding]; other site 406425020568 HipA N-terminal domain; Region: Couple_hipA; cl11853 406425020569 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 406425020570 HipA-like N-terminal domain; Region: HipA_N; pfam07805 406425020571 HipA-like C-terminal domain; Region: HipA_C; pfam07804 406425020572 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 406425020573 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 406425020574 dimer interface [polypeptide binding]; other site 406425020575 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 406425020576 active site 406425020577 Fe binding site [ion binding]; other site 406425020578 shikimate transporter; Provisional; Region: PRK09952 406425020579 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 406425020580 putative substrate translocation pore; other site 406425020581 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 406425020582 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 406425020583 putative active site [active] 406425020584 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 406425020585 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 406425020586 Bacterial transcriptional regulator; Region: IclR; pfam01614 406425020587 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 406425020588 DEAD_2; Region: DEAD_2; pfam06733 406425020589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 406425020590 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 406425020591 MltA-interacting protein MipA; Region: MipA; cl01504 406425020592 FOG: CBS domain [General function prediction only]; Region: COG0517 406425020593 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 406425020594 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 406425020595 Domain of unknown function (DUF305); Region: DUF305; cl15795 406425020596 outer membrane lipoprotein; Provisional; Region: PRK11023 406425020597 BON domain; Region: BON; cl02771 406425020598 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 406425020599 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 406425020600 putative active site [active] 406425020601 heme pocket [chemical binding]; other site 406425020602 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 406425020603 dimer interface [polypeptide binding]; other site 406425020604 phosphorylation site [posttranslational modification] 406425020605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425020606 ATP binding site [chemical binding]; other site 406425020607 G-X-G motif; other site 406425020608 Response regulator receiver domain; Region: Response_reg; pfam00072 406425020609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020610 active site 406425020611 phosphorylation site [posttranslational modification] 406425020612 intermolecular recognition site; other site 406425020613 dimerization interface [polypeptide binding]; other site 406425020614 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 406425020615 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 406425020616 Walker A motif; other site 406425020617 ATP binding site [chemical binding]; other site 406425020618 Walker B motif; other site 406425020619 arginine finger; other site 406425020620 Helix-turn-helix domains; Region: HTH; cl00088 406425020621 two component system sensor kinase SsrA; Provisional; Region: PRK15347 406425020622 Cache domain; Region: Cache_1; pfam02743 406425020623 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 406425020624 dimerization interface [polypeptide binding]; other site 406425020625 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 406425020626 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 406425020627 dimer interface [polypeptide binding]; other site 406425020628 putative CheW interface [polypeptide binding]; other site 406425020629 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 406425020630 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425020631 Ligand Binding Site [chemical binding]; other site 406425020632 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425020633 Ligand Binding Site [chemical binding]; other site 406425020634 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 406425020635 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 406425020636 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 406425020637 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 406425020638 active site residue [active] 406425020639 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 406425020640 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 406425020641 Ligand Binding Site [chemical binding]; other site 406425020642 PAS domain S-box; Region: sensory_box; TIGR00229 406425020643 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 406425020644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 406425020645 Histidine kinase; Region: HisKA_3; pfam07730 406425020646 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 406425020647 ATP binding site [chemical binding]; other site 406425020648 Mg2+ binding site [ion binding]; other site 406425020649 G-X-G motif; other site 406425020650 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 406425020651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020652 active site 406425020653 phosphorylation site [posttranslational modification] 406425020654 intermolecular recognition site; other site 406425020655 dimerization interface [polypeptide binding]; other site 406425020656 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 406425020657 DNA binding residues [nucleotide binding] 406425020658 dimerization interface [polypeptide binding]; other site 406425020659 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 406425020660 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 406425020661 PilZ domain; Region: PilZ; cl01260 406425020662 Transglycosylase; Region: Transgly; cl07896 406425020663 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 406425020664 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 406425020665 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 406425020666 Proline racemase; Region: Pro_racemase; pfam05544 406425020667 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 406425020668 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 406425020669 dimerization interface [polypeptide binding]; other site 406425020670 ligand binding site [chemical binding]; other site 406425020671 Transcriptional regulators [Transcription]; Region: FadR; COG2186 406425020672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 406425020673 DNA-binding site [nucleotide binding]; DNA binding site 406425020674 FCD domain; Region: FCD; cl11656 406425020675 ornithine cyclodeaminase; Validated; Region: PRK07340 406425020676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020677 Response regulator receiver domain; Region: Response_reg; pfam00072 406425020678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 406425020679 active site 406425020680 phosphorylation site [posttranslational modification] 406425020681 intermolecular recognition site; other site 406425020682 dimerization interface [polypeptide binding]; other site 406425020683 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 406425020684 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 406425020685 ligand binding site [chemical binding]; other site 406425020686 flexible hinge region; other site 406425020687 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 406425020688 putative switch regulator; other site 406425020689 non-specific DNA interactions [nucleotide binding]; other site 406425020690 DNA binding site [nucleotide binding] 406425020691 sequence specific DNA binding site [nucleotide binding]; other site 406425020692 putative cAMP binding site [chemical binding]; other site 406425020693 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 406425020694 Protein of unknown function, DUF488; Region: DUF488; cl01246 406425020695 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 406425020696 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 406425020697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 406425020698 homodimer interface [polypeptide binding]; other site 406425020699 catalytic residue [active] 406425020700 aromatic amino acid transporter; Provisional; Region: PRK10238 406425020701 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 406425020702 Helix-turn-helix domains; Region: HTH; cl00088 406425020703 AsnC family; Region: AsnC_trans_reg; pfam01037 406425020704 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 406425020705 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 406425020706 EamA-like transporter family; Region: EamA; cl01037 406425020707 Phosphoesterase family; Region: Phosphoesterase; cl15450 406425020708 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 406425020709 Methyltransferase domain; Region: Methyltransf_31; pfam13847 406425020710 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 406425020711 S-adenosylmethionine binding site [chemical binding]; other site 406425020712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 406425020713 FAD dependent oxidoreductase; Region: DAO; pfam01266 406425020714 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 406425020715 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 406425020716 Walker A/P-loop; other site 406425020717 ATP binding site [chemical binding]; other site 406425020718 Q-loop/lid; other site 406425020719 ABC transporter signature motif; other site 406425020720 Walker B; other site 406425020721 D-loop; other site 406425020722 H-loop/switch region; other site 406425020723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 406425020724 dimer interface [polypeptide binding]; other site 406425020725 conserved gate region; other site 406425020726 putative PBP binding loops; other site 406425020727 ABC-ATPase subunit interface; other site 406425020728 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 406425020729 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 406425020730 substrate binding pocket [chemical binding]; other site 406425020731 membrane-bound complex binding site; other site 406425020732 hinge residues; other site 406425020733 Transcriptional regulator [Transcription]; Region: IclR; COG1414 406425020734 Helix-turn-helix domains; Region: HTH; cl00088 406425020735 Bacterial transcriptional regulator; Region: IclR; pfam01614