-- dump date 20111121_014210 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272942000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 272942000002 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...; Region: AAA; cd00009 272942000003 Walker A motif; other site 272942000004 ATP binding site [chemical binding]; other site 272942000005 Walker B motif; other site 272942000006 arginine finger; other site 272942000007 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 272942000008 DnaA box-binding interface [nucleotide binding]; other site 272942000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 272942000010 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...; Region: beta_clamp; cd00140 272942000011 putative DNA binding surface [nucleotide binding]; other site 272942000012 dimer interface [polypeptide binding]; other site 272942000013 beta-clamp/clamp loader binding surface; other site 272942000014 beta-clamp/translesion DNA polymerase binding surface; other site 272942000015 recombination protein F; Reviewed; Region: recF; PRK00064 272942000016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942000017 Walker A/P-loop; other site 272942000018 ATP binding site [chemical binding]; other site 272942000019 Q-loop/lid; other site 272942000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942000021 ABC transporter signature motif; other site 272942000022 Walker B; other site 272942000023 D-loop; other site 272942000024 H-loop/switch region; other site 272942000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 272942000026 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 272942000027 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 272942000028 anchoring element; other site 272942000029 dimer interface [polypeptide binding]; other site 272942000030 ATP binding site [chemical binding]; other site 272942000031 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 272942000032 active site 272942000033 putative metal-binding site [ion binding]; other site 272942000034 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272942000035 Flavin Reductases; Region: FlaRed; cl00801 272942000036 flagellar motor protein MotB; Validated; Region: motB; PRK09041 272942000037 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 272942000038 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 272942000039 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 272942000040 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 272942000041 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 272942000042 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 272942000043 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 272942000044 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 272942000045 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272942000046 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 272942000047 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 272942000048 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 272942000049 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272942000050 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 272942000051 Walker A/P-loop; other site 272942000052 ATP binding site [chemical binding]; other site 272942000053 Q-loop/lid; other site 272942000054 ABC transporter signature motif; other site 272942000055 Walker B; other site 272942000056 D-loop; other site 272942000057 H-loop/switch region; other site 272942000058 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 272942000059 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272942000060 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272942000061 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 272942000062 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 272942000063 N- and C-terminal domain interface [polypeptide binding]; other site 272942000064 D-xylulose kinase; Region: XylB; TIGR01312 272942000065 active site 272942000066 catalytic site [active] 272942000067 metal binding site [ion binding]; metal-binding site 272942000068 xylulose binding site [chemical binding]; other site 272942000069 putative ATP binding site [chemical binding]; other site 272942000070 homodimer interface [polypeptide binding]; other site 272942000071 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942000072 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...; Region: ABC_Carb_Monos_I; cd03216 272942000073 Walker A/P-loop; other site 272942000074 ATP binding site [chemical binding]; other site 272942000075 Q-loop/lid; other site 272942000076 ABC transporter signature motif; other site 272942000077 Walker B; other site 272942000078 D-loop; other site 272942000079 H-loop/switch region; other site 272942000080 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 272942000081 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 272942000082 TM-ABC transporter signature motif; other site 272942000083 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 272942000084 putative ligand binding site [chemical binding]; other site 272942000085 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272942000086 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 272942000087 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 272942000088 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272942000089 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...; Region: Aldo_ket_red; cd06660 272942000090 active site 272942000091 catalytic tetrad [active] 272942000092 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 272942000093 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 272942000094 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942000095 FAD binding site [chemical binding]; other site 272942000096 substrate binding pocket [chemical binding]; other site 272942000097 catalytic base [active] 272942000098 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942000099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942000100 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 272942000101 dimerization interface [polypeptide binding]; other site 272942000102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 272942000103 Family of unknown function (DUF490); Region: DUF490; pfam04357 272942000104 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 272942000105 Surface antigen; Region: Bac_surface_Ag; cl03097 272942000106 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 272942000107 active site 272942000108 metal binding site [ion binding]; metal-binding site 272942000109 nudix motif; other site 272942000110 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 272942000111 SecA binding site; other site 272942000112 Preprotein binding site; other site 272942000113 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 272942000114 Tim44-like domain; Region: Tim44; cl09208 272942000115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 272942000116 Smr domain; Region: Smr; cl02619 272942000117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 272942000118 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 272942000119 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 272942000120 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...; Region: AAA; cd00009 272942000121 Walker A motif; other site 272942000122 ATP binding site [chemical binding]; other site 272942000123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942000124 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272942000125 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 four-...; Region: Ntn_hydrolase; cl00467 272942000126 active site 272942000127 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 272942000128 catalytic residues [active] 272942000129 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 272942000130 UvrD/REP helicase; Region: UvrD-helicase; cl14126 272942000131 UvrD/REP helicase; Region: UvrD-helicase; cl14126 272942000132 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272942000133 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 272942000134 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 272942000135 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272942000136 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 272942000137 Substrate binding site [chemical binding]; other site 272942000138 metal binding site [ion binding]; metal-binding site 272942000139 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272942000140 Phosphotransferase enzyme family; Region: APH; pfam01636 272942000141 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 272942000142 PAS fold; Region: PAS_7; pfam12860 272942000143 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 272942000144 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 trans-...; Region: HisKA; cd00082 272942000145 dimer interface [polypeptide binding]; other site 272942000146 phosphorylation site [posttranslational modification] 272942000147 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 272942000148 ATP binding site [chemical binding]; other site 272942000149 Mg2+ binding site [ion binding]; other site 272942000150 G-X-G motif; other site 272942000151 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 272942000152 Cu(I) binding site [ion binding]; other site 272942000153 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 272942000154 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 272942000155 active site 272942000156 phosphorylation site [posttranslational modification] 272942000157 intermolecular recognition site; other site 272942000158 dimerization interface [polypeptide binding]; other site 272942000159 H-NS histone family; Region: Histone_HNS; pfam00816 272942000160 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 272942000161 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942000162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942000163 The C-terminal substrate-binding domain of LysR-type transcriptional regulator HvrB, an activator of S-adenosyl-L-homocysteine hydrolase expression, contains the type 2 periplasmic binding fold; Region: PBP2_HvrB; cd08483 272942000164 putative dimerization interface [polypeptide binding]; other site 272942000165 putative substrate binding pocket [chemical binding]; other site 272942000166 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272942000167 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 272942000168 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...; Region: AdoHcyase; cd00401 272942000169 oligomerization interface [polypeptide binding]; other site 272942000170 active site 272942000171 NAD+ binding site [chemical binding]; other site 272942000172 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 272942000173 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 272942000174 substrate binding site [chemical binding]; other site 272942000175 oxyanion hole (OAH) forming residues; other site 272942000176 trimer interface [polypeptide binding]; other site 272942000177 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; cl11537 272942000178 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272942000179 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 272942000180 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 272942000181 active site 272942000182 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 272942000183 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942000184 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 272942000185 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 272942000186 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 272942000187 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 272942000188 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 272942000189 ParB-like partition proteins; Region: parB_part; TIGR00180 272942000190 ParB-like nuclease domain; Region: ParBc; cl02129 272942000191 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272942000192 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...; Region: ParA; cd02042 272942000193 P-loop; other site 272942000194 Magnesium ion binding site [ion binding]; other site 272942000195 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...; Region: ParA; cd02042 272942000196 Magnesium ion binding site [ion binding]; other site 272942000197 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 272942000198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942000199 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 272942000200 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272942000201 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272942000202 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 272942000203 G1 box; other site 272942000204 GTP/Mg2+ binding site [chemical binding]; other site 272942000205 Switch I region; other site 272942000206 G2 box; other site 272942000207 Switch II region; other site 272942000208 G3 box; other site 272942000209 G4 box; other site 272942000210 G5 box; other site 272942000211 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272942000212 transcription termination factor Rho; Provisional; Region: rho; PRK09376 272942000213 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 272942000214 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...; Region: Rho_CSD; cd04459 272942000215 RNA binding site [nucleotide binding]; other site 272942000216 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...; Region: rho_factor; cd01128 272942000217 multimer interface [polypeptide binding]; other site 272942000218 Walker A motif; other site 272942000219 ATP binding site [chemical binding]; other site 272942000220 Walker B motif; other site 272942000221 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 272942000222 Maf-like protein; Region: Maf; pfam02545 272942000223 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 272942000224 active site 272942000225 dimer interface [polypeptide binding]; other site 272942000226 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 272942000227 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272942000228 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272942000229 shikimate binding site; other site 272942000230 NAD(P) binding site [chemical binding]; other site 272942000231 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 272942000232 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 272942000233 CoA-binding site [chemical binding]; other site 272942000234 ATP-binding [chemical binding]; other site 272942000235 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 272942000236 active site 272942000237 substrate binding site [chemical binding]; other site 272942000238 catalytic site [active] 272942000239 Quinolinate synthetase A protein; Region: NadA; cl00420 272942000240 L-aspartate oxidase; Provisional; Region: PRK07512 272942000241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942000242 domain; Region: Succ_DH_flav_C; pfam02910 272942000243 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 272942000244 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 5-...; Region: QPRTase; cd01572 272942000245 dimerization interface [polypeptide binding]; other site 272942000246 active site 272942000247 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...; Region: Ap4A_hydrolase_plant_like; cd03671 272942000248 putative active site [active] 272942000249 Ap4A binding site [chemical binding]; other site 272942000250 nudix motif; other site 272942000251 putative metal binding site [ion binding]; other site 272942000252 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 272942000253 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272942000254 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 272942000255 protein binding site [polypeptide binding]; other site 272942000256 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272942000257 Catalytic dyad [active] 272942000258 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 272942000259 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942000260 Sulfatase; Region: Sulfatase; cl10460 272942000261 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 272942000262 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 272942000263 Domain of unknown function DUF143; Region: DUF143; cl00519 272942000264 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 272942000265 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 272942000266 substrate binding site [chemical binding]; other site 272942000267 ligand binding site [chemical binding]; other site 272942000268 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 3-...; Region: IPMI_Swivel; cd01577 272942000269 substrate binding site [chemical binding]; other site 272942000270 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272942000271 putative catalytic site [active] 272942000272 putative phosphate binding site [ion binding]; other site 272942000273 putative metal binding site [ion binding]; other site 272942000274 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272942000275 isocitrate dehydrogenase; Validated; Region: PRK06451 272942000276 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 272942000277 putative homotetramer interface [polypeptide binding]; other site 272942000278 putative homodimer interface [polypeptide binding]; other site 272942000279 putative metal binding site [ion binding]; other site 272942000280 putative homodimer-homodimer interface [polypeptide binding]; other site 272942000281 putative allosteric switch controlling residues; other site 272942000282 Cation efflux family; Region: Cation_efflux; cl00316 272942000283 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272942000284 FeoA domain; Region: FeoA; cl00838 272942000285 FeoA domain; Region: FeoA; cl00838 272942000286 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 272942000287 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 272942000288 G1 box; other site 272942000289 GTP/Mg2+ binding site [chemical binding]; other site 272942000290 Switch I region; other site 272942000291 G2 box; other site 272942000292 G3 box; other site 272942000293 Switch II region; other site 272942000294 G4 box; other site 272942000295 Nucleoside recognition; Region: Gate; cl00486 272942000296 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272942000297 FeoC like transcriptional regulator; Region: FeoC; cl07573 272942000298 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 272942000299 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 272942000300 Walker A/P-loop; other site 272942000301 ATP binding site [chemical binding]; other site 272942000302 Q-loop/lid; other site 272942000303 ABC transporter signature motif; other site 272942000304 Walker B; other site 272942000305 D-loop; other site 272942000306 H-loop/switch region; other site 272942000307 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942000308 putative PBP binding regions; other site 272942000309 ABC-ATPase subunit interface; other site 272942000310 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...; Region: TroA-like; cl00262 272942000311 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942000312 intersubunit interface [polypeptide binding]; other site 272942000313 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 272942000314 ChuX-like family; Region: DUF1008; cl01509 272942000315 ChuX-like family; Region: DUF1008; cl01509 272942000316 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 272942000317 N-terminal plug; other site 272942000318 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 272942000319 ligand-binding site [chemical binding]; other site 272942000320 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942000321 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 272942000322 Walker A/P-loop; other site 272942000323 ATP binding site [chemical binding]; other site 272942000324 Q-loop/lid; other site 272942000325 ABC transporter signature motif; other site 272942000326 Walker B; other site 272942000327 D-loop; other site 272942000328 H-loop/switch region; other site 272942000329 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 272942000330 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 272942000331 Walker A/P-loop; other site 272942000332 ATP binding site [chemical binding]; other site 272942000333 Q-loop/lid; other site 272942000334 ABC transporter signature motif; other site 272942000335 Walker B; other site 272942000336 D-loop; other site 272942000337 H-loop/switch region; other site 272942000338 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...; Region: TM_PBP2; cl00427 272942000339 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942000340 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...; Region: TM_PBP2; cl00427 272942000341 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_19; cd08518 272942000342 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272942000343 Protein of unknown function (DUF454); Region: DUF454; cl01063 272942000344 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 272942000345 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 272942000346 Walker A/P-loop; other site 272942000347 ATP binding site [chemical binding]; other site 272942000348 Q-loop/lid; other site 272942000349 ABC transporter signature motif; other site 272942000350 Walker B; other site 272942000351 D-loop; other site 272942000352 H-loop/switch region; other site 272942000353 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942000354 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942000355 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 272942000356 putative ligand binding residues [chemical binding]; other site 272942000357 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 272942000358 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 272942000359 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 272942000360 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 272942000361 N-terminal plug; other site 272942000362 ligand-binding site [chemical binding]; other site 272942000363 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942000364 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 272942000365 putative active site [active] 272942000366 catalytic site [active] 272942000367 putative substrate binding site [chemical binding]; other site 272942000368 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 272942000369 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 5-...; Region: SIS_Kpsf; cd05014 272942000370 putative active site [active] 272942000371 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 272942000372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 272942000373 OstA-like protein; Region: OstA; cl00844 272942000374 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 272942000375 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 272942000376 Walker A/P-loop; other site 272942000377 ATP binding site [chemical binding]; other site 272942000378 Q-loop/lid; other site 272942000379 ABC transporter signature motif; other site 272942000380 Walker B; other site 272942000381 D-loop; other site 272942000382 H-loop/switch region; other site 272942000383 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 272942000384 30S subunit binding site; other site 272942000385 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 272942000386 active site 272942000387 phosphorylation site [posttranslational modification] 272942000388 Core-2/I-Branching enzyme; Region: Branch; pfam02485 272942000389 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 272942000390 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 272942000391 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272942000392 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 272942000393 NAD binding site [chemical binding]; other site 272942000394 homodimer interface [polypeptide binding]; other site 272942000395 active site 272942000396 substrate binding site [chemical binding]; other site 272942000397 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272942000398 active site 272942000399 tetramer interface [polypeptide binding]; other site 272942000400 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 272942000401 Ligand binding site [chemical binding]; other site 272942000402 oligomer interface [polypeptide binding]; other site 272942000403 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 272942000404 active site 272942000405 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272942000406 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942000407 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942000408 DNA binding site [nucleotide binding] 272942000409 domain linker motif; other site 272942000410 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 272942000411 putative dimerization interface [polypeptide binding]; other site 272942000412 putative ligand binding site [chemical binding]; other site 272942000413 hypothetical protein; Provisional; Region: PRK01254 272942000414 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; cl15259 272942000415 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 272942000416 16S rRNA methyltransferase B; Provisional; Region: PRK14902 272942000417 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 272942000418 S-adenosylmethionine binding site [chemical binding]; other site 272942000419 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 272942000420 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 272942000421 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942000422 Walker A/P-loop; other site 272942000423 ATP binding site [chemical binding]; other site 272942000424 Q-loop/lid; other site 272942000425 ABC transporter signature motif; other site 272942000426 Walker B; other site 272942000427 D-loop; other site 272942000428 H-loop/switch region; other site 272942000429 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH...; Region: alkPPc; cd00016 272942000430 dimer interface [polypeptide binding]; other site 272942000431 Alkaline phosphatase homologues; Region: alkPPc; smart00098 272942000432 active site 272942000433 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 272942000434 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272942000435 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...; Region: DnaE_OBF; cd04485 272942000436 generic binding surface I; other site 272942000437 generic binding surface II; other site 272942000438 DNA Polymerase Y-family; Region: PolY_like; cd03468 272942000439 active site 272942000440 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 272942000441 DNA binding site [nucleotide binding] 272942000442 Cell division inhibitor SulA; Region: SulA; cl01880 272942000443 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 272942000444 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 272942000445 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272942000446 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 272942000447 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272942000448 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 272942000449 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 272942000450 Ligand binding site [chemical binding]; other site 272942000451 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 272942000452 NADP binding site [chemical binding]; other site 272942000453 active site 272942000454 steroid binding site; other site 272942000455 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 272942000456 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...; Region: TOP4c; cd00187 272942000457 CAP-like domain; other site 272942000458 Active site [active] 272942000459 primary dimer interface [polypeptide binding]; other site 272942000460 elongation factor Tu; Reviewed; Region: PRK00049 272942000461 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 272942000462 G1 box; other site 272942000463 GEF interaction site [polypeptide binding]; other site 272942000464 GTP/Mg2+ binding site [chemical binding]; other site 272942000465 Switch I region; other site 272942000466 G2 box; other site 272942000467 G3 box; other site 272942000468 Switch II region; other site 272942000469 G4 box; other site 272942000470 G5 box; other site 272942000471 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 272942000472 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 272942000473 Antibiotic Binding Site [chemical binding]; other site 272942000474 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272942000475 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942000476 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942000477 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942000478 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 272942000479 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942000480 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 272942000481 putative active site [active] 272942000482 ChuX-like family; Region: DUF1008; cl01509 272942000483 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 272942000484 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 272942000485 FeS/SAM binding site; other site 272942000486 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_3; cd08490 272942000487 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272942000488 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 272942000489 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 272942000490 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...; Region: TM_PBP2; cl00427 272942000491 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272942000492 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272942000493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942000494 Walker A/P-loop; other site 272942000495 ATP binding site [chemical binding]; other site 272942000496 Q-loop/lid; other site 272942000497 ABC transporter signature motif; other site 272942000498 Walker B; other site 272942000499 D-loop; other site 272942000500 H-loop/switch region; other site 272942000501 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942000502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942000503 Walker A/P-loop; other site 272942000504 ATP binding site [chemical binding]; other site 272942000505 Q-loop/lid; other site 272942000506 ABC transporter signature motif; other site 272942000507 Walker B; other site 272942000508 D-loop; other site 272942000509 H-loop/switch region; other site 272942000510 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272942000511 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 272942000512 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 272942000513 active site 272942000514 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942000515 Transglycosylase; Region: Transgly; cl07896 272942000516 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 272942000517 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 N-...; Region: GltS; cd00713 272942000518 active site 272942000519 dimer interface [polypeptide binding]; other site 272942000520 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 272942000521 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...; Region: GltS_FMN; cd02808 272942000522 active site 272942000523 FMN binding site [chemical binding]; other site 272942000524 substrate binding site [chemical binding]; other site 272942000525 3Fe-4S cluster binding site [ion binding]; other site 272942000526 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 272942000527 domain interface; other site 272942000528 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 272942000529 Bacitracin resistance protein BacA; Region: BacA; cl00858 272942000530 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 272942000531 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 272942000532 putative NAD(P) binding site [chemical binding]; other site 272942000533 active site 272942000534 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 272942000535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 272942000536 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272942000537 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272942000538 Rhamnan synthesis protein F; Region: RgpF; cl01529 272942000539 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 272942000540 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272942000541 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 272942000542 active site 272942000543 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272942000544 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 272942000545 Vi polysaccharide export inner membrane protein VexD; Provisional; Region: PRK15178 272942000546 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272942000547 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...; Region: ABC_KpsT_Wzt; cd03220 272942000548 Walker A/P-loop; other site 272942000549 ATP binding site [chemical binding]; other site 272942000550 Q-loop/lid; other site 272942000551 ABC transporter signature motif; other site 272942000552 Walker B; other site 272942000553 D-loop; other site 272942000554 H-loop/switch region; other site 272942000555 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 272942000556 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 272942000557 Probable Catalytic site [active] 272942000558 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272942000559 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 272942000560 substrate binding site [chemical binding]; other site 272942000561 tetramer interface [polypeptide binding]; other site 272942000562 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272942000563 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 272942000564 NADP binding site [chemical binding]; other site 272942000565 active site 272942000566 putative substrate binding site [chemical binding]; other site 272942000567 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 272942000568 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272942000569 NAD binding site [chemical binding]; other site 272942000570 substrate binding site [chemical binding]; other site 272942000571 homodimer interface [polypeptide binding]; other site 272942000572 active site 272942000573 Cupin domain; Region: Cupin_2; cl09118 272942000574 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942000575 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942000576 threonine dehydratase; Validated; Region: PRK08639 272942000577 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 272942000578 tetramer interface [polypeptide binding]; other site 272942000579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942000580 catalytic residue [active] 272942000581 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 272942000582 putative Ile/Val binding site [chemical binding]; other site 272942000583 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 272942000584 Response regulator receiver domain; Region: Response_reg; pfam00072 272942000585 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 272942000586 active site 272942000587 phosphorylation site [posttranslational modification] 272942000588 intermolecular recognition site; other site 272942000589 dimerization interface [polypeptide binding]; other site 272942000590 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 272942000591 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272942000592 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 272942000593 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942000594 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 272942000595 Walker A/P-loop; other site 272942000596 ATP binding site [chemical binding]; other site 272942000597 Q-loop/lid; other site 272942000598 ABC transporter signature motif; other site 272942000599 Walker B; other site 272942000600 D-loop; other site 272942000601 H-loop/switch region; other site 272942000602 Outer membrane efflux protein; Region: OEP; pfam02321 272942000603 Protein of unknown function (DUF3607); Region: DUF3607; pfam12245 272942000604 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X...; Region: Nudix_Hydrolase_25; cd04684 272942000605 nudix motif; other site 272942000606 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 272942000607 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 272942000608 dimerization interface [polypeptide binding]; other site 272942000609 domain crossover interface; other site 272942000610 redox-dependent activation switch; other site 272942000611 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 272942000612 putative active site [active] 272942000613 putative CoA binding site [chemical binding]; other site 272942000614 nudix motif; other site 272942000615 metal binding site [ion binding]; metal-binding site 272942000616 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272942000617 active site 272942000618 NTP binding site [chemical binding]; other site 272942000619 metal binding triad [ion binding]; metal-binding site 272942000620 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942000621 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942000622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942000623 Walker A/P-loop; other site 272942000624 ATP binding site [chemical binding]; other site 272942000625 Q-loop/lid; other site 272942000626 ABC transporter signature motif; other site 272942000627 Walker B; other site 272942000628 D-loop; other site 272942000629 H-loop/switch region; other site 272942000630 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272942000631 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; cl12011 272942000632 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942000633 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 272942000634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942000635 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942000636 ferrochelatase; Reviewed; Region: hemH; PRK00035 272942000637 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 272942000638 C-terminal domain interface [polypeptide binding]; other site 272942000639 active site 272942000640 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 272942000641 active site 272942000642 N-terminal domain interface [polypeptide binding]; other site 272942000643 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272942000644 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; cl12011 272942000645 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942000646 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 272942000647 GSH binding site [chemical binding]; other site 272942000648 catalytic residues [active] 272942000649 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272942000650 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 272942000651 putative active site [active] 272942000652 catalytic triad [active] 272942000653 dimer interface [polypeptide binding]; other site 272942000654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942000655 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 272942000656 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; cl12011 272942000657 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272942000658 RNA/DNA hybrid binding site [nucleotide binding]; other site 272942000659 active site 272942000660 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 272942000661 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 272942000662 dimer interface [polypeptide binding]; other site 272942000663 active site 272942000664 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942000665 catalytic residues [active] 272942000666 substrate binding site [chemical binding]; other site 272942000667 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 272942000668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942000669 NAD(P) binding pocket [chemical binding]; other site 272942000670 argininosuccinate synthase; Provisional; Region: PLN00200 272942000671 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 272942000672 ANP binding site [chemical binding]; other site 272942000673 Substrate Binding Site II [chemical binding]; other site 272942000674 Substrate Binding Site I [chemical binding]; other site 272942000675 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 272942000676 MPT binding site; other site 272942000677 trimer interface [polypeptide binding]; other site 272942000678 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 272942000679 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 272942000680 S-adenosylmethionine binding site [chemical binding]; other site 272942000681 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 272942000682 ribosome maturation protein RimP; Reviewed; Region: PRK00092 272942000683 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...; Region: Sm_like; cl00259 272942000684 Sm1 motif; other site 272942000685 D3 - B interaction site; other site 272942000686 D1 - D2 interaction site; other site 272942000687 Hfq - Hfq interaction site; other site 272942000688 RNA binding pocket [nucleotide binding]; other site 272942000689 Sm2 motif; other site 272942000690 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 272942000691 NusA N-terminal domain; Region: NusA_N; pfam08529 272942000692 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...; Region: S1_NusA; cd04455 272942000693 RNA binding site [nucleotide binding]; other site 272942000694 homodimer interface [polypeptide binding]; other site 272942000695 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 272942000696 G-X-X-G motif; other site 272942000697 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 272942000698 hypothetical protein; Provisional; Region: PRK09190 272942000699 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 272942000700 putative RNA binding cleft [nucleotide binding]; other site 272942000701 translation initiation factor IF-2; Region: IF-2; TIGR00487 272942000702 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272942000703 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 272942000704 G1 box; other site 272942000705 putative GEF interaction site [polypeptide binding]; other site 272942000706 GTP/Mg2+ binding site [chemical binding]; other site 272942000707 Switch I region; other site 272942000708 G2 box; other site 272942000709 G3 box; other site 272942000710 Switch II region; other site 272942000711 G4 box; other site 272942000712 G5 box; other site 272942000713 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...; Region: IF2_mtIF2_II; cd03702 272942000714 Translation-initiation factor 2; Region: IF-2; pfam11987 272942000715 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...; Region: mtIF2_IVc; cd03692 272942000716 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 272942000717 active site 272942000718 8-oxo-dGMP binding site [chemical binding]; other site 272942000719 nudix motif; other site 272942000720 metal binding site [ion binding]; metal-binding site 272942000721 bZIP transcription factor; Region: bZIP_1; cl02576 272942000722 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...; Region: OAT; cd02152 272942000723 heterotetramer interface [polypeptide binding]; other site 272942000724 active site pocket [active] 272942000725 cleavage site 272942000726 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 272942000727 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272942000728 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272942000729 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 272942000730 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 272942000731 nucleotide binding region [chemical binding]; other site 272942000732 ATP-binding site [chemical binding]; other site 272942000733 SEC-C motif; Region: SEC-C; cl12132 272942000734 DNA repair protein radc; Region: radc; TIGR00608 272942000735 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 272942000736 MPN+ (JAMM) motif; other site 272942000737 Zinc-binding site [ion binding]; other site 272942000738 chaperone protein DnaJ; Provisional; Region: PRK10767 272942000739 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...; Region: DnaJ; cd06257 272942000740 HSP70 interaction site [polypeptide binding]; other site 272942000741 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 272942000742 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 272942000743 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 272942000744 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272942000745 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 272942000746 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 272942000747 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272942000748 minor groove reading motif; other site 272942000749 helix-hairpin-helix signature motif; other site 272942000750 substrate binding pocket [chemical binding]; other site 272942000751 active site 272942000752 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272942000753 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 272942000754 DNA binding and oxoG recognition site [nucleotide binding] 272942000755 Protein of unknown function (DUF721); Region: DUF721; cl02324 272942000756 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942000757 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 272942000758 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 272942000759 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272942000760 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272942000761 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 D-arabino-6-...; Region: AP2Ec; cl12060 272942000762 Metal-binding active site; metal-binding site 272942000763 Predicted ATPase [General function prediction only]; Region: COG1485 272942000764 CE1758 family; Region: LLM_CE1758_fam; TIGR04036 272942000765 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 272942000766 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 272942000767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942000768 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 272942000769 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 272942000770 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942000771 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 272942000772 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272942000773 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942000774 L-asparaginase II; Region: Asparaginase_II; cl01842 272942000775 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 272942000776 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 272942000777 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 272942000778 FeS/SAM binding site; other site 272942000779 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 272942000780 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 272942000781 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 272942000782 trimer interface [polypeptide binding]; other site 272942000783 active site 272942000784 substrate binding site [chemical binding]; other site 272942000785 CoA binding site [chemical binding]; other site 272942000786 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 272942000787 lytic murein transglycosylase; Region: MltB_2; TIGR02283 272942000788 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942000789 NnrU protein; Region: NnrU; cl01697 272942000790 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 272942000791 EamA-like transporter family; Region: EamA; cl01037 272942000792 EamA-like transporter family; Region: EamA; cl01037 272942000793 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 higher-...; Region: HU_IHF; cd00591 272942000794 IHF dimer interface [polypeptide binding]; other site 272942000795 IHF - DNA interface [nucleotide binding]; other site 272942000796 AMP nucleosidase; Provisional; Region: PRK08292 272942000797 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 272942000798 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272942000799 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 272942000800 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...; Region: metallo-dependent_hydrolases; cl00281 272942000801 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen...; Region: AdeC; cd01295 272942000802 active site 272942000803 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...; Region: metallo-dependent_hydrolases; cl00281 272942000804 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272942000805 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 272942000806 putative NAD(P) binding site [chemical binding]; other site 272942000807 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 272942000808 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272942000809 putative substrate translocation pore; other site 272942000810 Predicted flavoproteins [General function prediction only]; Region: COG2081 272942000811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942000812 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 272942000813 Predicted secreted (periplasmic) protein (DUF2159); Region: DUF2159; cl11572 272942000814 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272942000815 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272942000816 HIGH motif; other site 272942000817 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942000818 active site 272942000819 KMSKS motif; other site 272942000820 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272942000821 tRNA binding surface [nucleotide binding]; other site 272942000822 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 272942000823 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 272942000824 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942000825 catalytic residue [active] 272942000826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 272942000827 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 272942000828 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 272942000829 dimerization interface [polypeptide binding]; other site 272942000830 active site 272942000831 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942000832 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 272942000833 active site 272942000834 phosphorylation site [posttranslational modification] 272942000835 intermolecular recognition site; other site 272942000836 dimerization interface [polypeptide binding]; other site 272942000837 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...; Region: trans_reg_C; cd00383 272942000838 DNA binding site [nucleotide binding] 272942000839 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 272942000840 RmuC family; Region: RmuC; pfam02646 272942000841 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 272942000842 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 272942000843 ATP binding site [chemical binding]; other site 272942000844 Mg2+ binding site [ion binding]; other site 272942000845 G-X-G motif; other site 272942000846 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 272942000847 ATP binding site [chemical binding]; other site 272942000848 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 272942000849 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272942000850 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272942000851 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272942000852 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272942000853 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272942000854 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 272942000855 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272942000856 lipoprotein signal peptidase; Provisional; Region: PRK14787 272942000857 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 272942000858 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 272942000859 purine monophosphate binding site [chemical binding]; other site 272942000860 dimer interface [polypeptide binding]; other site 272942000861 putative catalytic residues [active] 272942000862 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272942000863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 272942000864 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 272942000865 16S rRNA methyltransferase B; Provisional; Region: PRK10901 272942000866 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 rRNA-...; Region: NusB_Sun; cl00223 272942000867 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 272942000868 S-adenosylmethionine binding site [chemical binding]; other site 272942000869 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 272942000870 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272942000871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942000872 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272942000873 Ribosome-binding factor A; Region: RBFA; cl00542 272942000874 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 272942000875 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 272942000876 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 272942000877 RNA binding site [nucleotide binding]; other site 272942000878 active site 272942000879 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 272942000880 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...; Region: Ribosomal_S15p_S13e; cd00353 272942000881 16S/18S rRNA binding site [nucleotide binding]; other site 272942000882 S13e-L30e interaction site [polypeptide binding]; other site 272942000883 25S rRNA binding site [nucleotide binding]; other site 272942000884 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 272942000885 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942000886 NAD binding site [chemical binding]; other site 272942000887 catalytic residues [active] 272942000888 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272942000889 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 272942000890 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 272942000891 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272942000892 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 272942000893 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 272942000894 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 272942000895 putative nucleic acid binding region [nucleotide binding]; other site 272942000896 G-X-X-G motif; other site 272942000897 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 272942000898 RNA binding site [nucleotide binding]; other site 272942000899 domain interface; other site 272942000900 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 272942000901 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272942000902 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272942000903 putative homodimer interface [polypeptide binding]; other site 272942000904 KOW motif; Region: KOW; cl00354 272942000905 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272942000906 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 272942000907 23S rRNA interface [nucleotide binding]; other site 272942000908 L7/L12 interface [polypeptide binding]; other site 272942000909 putative thiostrepton binding site; other site 272942000910 L25 interface [polypeptide binding]; other site 272942000911 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...; Region: Ribosomal_L1; cd00403 272942000912 mRNA/rRNA interface [nucleotide binding]; other site 272942000913 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...; Region: Ribosomal_L10; cd05797 272942000914 23S rRNA interface [nucleotide binding]; other site 272942000915 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272942000916 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 272942000917 core dimer interface [polypeptide binding]; other site 272942000918 peripheral dimer interface [polypeptide binding]; other site 272942000919 L10 interface [polypeptide binding]; other site 272942000920 L11 interface [polypeptide binding]; other site 272942000921 putative EF-Tu interaction site [polypeptide binding]; other site 272942000922 putative EF-G interaction site [polypeptide binding]; other site 272942000923 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 272942000924 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 272942000925 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 272942000926 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 272942000927 RPB12 interaction site [polypeptide binding]; other site 272942000928 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 272942000929 RPB11 interaction site [polypeptide binding]; other site 272942000930 RPB12 interaction site [polypeptide binding]; other site 272942000931 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 272942000932 RPB1 interaction site [polypeptide binding]; other site 272942000933 RPB11 interaction site [polypeptide binding]; other site 272942000934 RPB10 interaction site [polypeptide binding]; other site 272942000935 RPB3 interaction site [polypeptide binding]; other site 272942000936 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 272942000937 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 272942000938 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 272942000939 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 272942000940 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 272942000941 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 272942000942 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 272942000943 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 272942000944 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 272942000945 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272942000946 DNA binding site [nucleotide binding] 272942000947 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272942000948 Protein of unknown function (DUF3118); Region: DUF3118; pfam11316 272942000949 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 272942000950 S17 interaction site [polypeptide binding]; other site 272942000951 S8 interaction site; other site 272942000952 16S rRNA interaction site [nucleotide binding]; other site 272942000953 streptomycin interaction site [chemical binding]; other site 272942000954 23S rRNA interaction site [nucleotide binding]; other site 272942000955 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272942000956 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 272942000957 elongation factor G; Reviewed; Region: PRK00007 272942000958 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 272942000959 G1 box; other site 272942000960 putative GEF interaction site [polypeptide binding]; other site 272942000961 GTP/Mg2+ binding site [chemical binding]; other site 272942000962 Switch I region; other site 272942000963 G2 box; other site 272942000964 G3 box; other site 272942000965 Switch II region; other site 272942000966 G4 box; other site 272942000967 G5 box; other site 272942000968 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...; Region: EFG_mtEFG_II; cd04088 272942000969 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...; Region: EFG_mtEFG1_IV; cd01434 272942000970 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...; Region: EFG_mtEFG_C; cd03713 272942000971 elongation factor Tu; Reviewed; Region: PRK00049 272942000972 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 272942000973 G1 box; other site 272942000974 GEF interaction site [polypeptide binding]; other site 272942000975 GTP/Mg2+ binding site [chemical binding]; other site 272942000976 Switch I region; other site 272942000977 G2 box; other site 272942000978 G3 box; other site 272942000979 Switch II region; other site 272942000980 G4 box; other site 272942000981 G5 box; other site 272942000982 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 272942000983 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 272942000984 Antibiotic Binding Site [chemical binding]; other site 272942000985 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 272942000986 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 272942000987 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 272942000988 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 272942000989 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272942000990 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272942000991 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272942000992 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 272942000993 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 272942000994 putative translocon binding site; other site 272942000995 protein-rRNA interface [nucleotide binding]; other site 272942000996 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 272942000997 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...; Region: 30S_S3_KH; cd02412 272942000998 G-X-X-G motif; other site 272942000999 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272942001000 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 272942001001 23S rRNA interface [nucleotide binding]; other site 272942001002 5S rRNA interface [nucleotide binding]; other site 272942001003 putative antibiotic binding site [chemical binding]; other site 272942001004 L25 interface [polypeptide binding]; other site 272942001005 L27 interface [polypeptide binding]; other site 272942001006 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272942001007 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...; Region: Ribosomal_L29_HIP; cl09943 272942001008 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 272942001009 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 272942001010 KOW motif; Region: KOW; cl00354 272942001011 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272942001012 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272942001013 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272942001014 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 272942001015 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 272942001016 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 272942001017 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272942001018 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272942001019 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 272942001020 5S rRNA interface [nucleotide binding]; other site 272942001021 23S rRNA interface [nucleotide binding]; other site 272942001022 L5 interface [polypeptide binding]; other site 272942001023 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 272942001024 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272942001025 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272942001026 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...; Region: Ribosomal_L30; cd01658 272942001027 23S rRNA binding site [nucleotide binding]; other site 272942001028 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 272942001029 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272942001030 SecY translocase; Region: SecY; pfam00344 272942001031 adenylate kinase; Reviewed; Region: adk; PRK00279 272942001032 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 272942001033 AMP-binding site [chemical binding]; other site 272942001034 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272942001035 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 272942001036 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 272942001037 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 272942001038 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 272942001039 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272942001040 alphaNTD - beta interaction site [polypeptide binding]; other site 272942001041 alphaNTD homodimer interface [polypeptide binding]; other site 272942001042 alphaNTD - beta' interaction site [polypeptide binding]; other site 272942001043 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 272942001044 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 272942001045 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272942001046 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942001048 recombination factor protein RarA; Reviewed; Region: PRK13342 272942001049 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...; Region: AAA; cd00009 272942001050 Walker A motif; other site 272942001051 ATP binding site [chemical binding]; other site 272942001052 Walker B motif; other site 272942001053 arginine finger; other site 272942001054 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272942001055 CrcB-like protein; Region: CRCB; cl09114 272942001056 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272942001057 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 272942001058 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 272942001059 active site 272942001060 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942001061 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 272942001062 motif II; other site 272942001063 ATP12 chaperone protein; Region: ATP12; cl02228 272942001064 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 272942001065 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...; Region: PBPb; cd00134 272942001066 substrate binding pocket [chemical binding]; other site 272942001067 membrane-bound complex binding site; other site 272942001068 hinge residues; other site 272942001069 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 272942001070 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...; Region: TM_PBP2; cl00427 272942001071 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...; Region: TM_PBP2; cd06261 272942001072 dimer interface [polypeptide binding]; other site 272942001073 ABC-ATPase subunit interface; other site 272942001074 putative PBP binding loops; other site 272942001075 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942001076 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...; Region: TM_PBP2; cd06261 272942001077 dimer interface [polypeptide binding]; other site 272942001078 conserved gate region; other site 272942001079 putative PBP binding loops; other site 272942001080 ABC-ATPase subunit interface; other site 272942001081 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272942001082 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; Region: ABC_HisP_GlnQ_permeases; cd03262 272942001083 Walker A/P-loop; other site 272942001084 ATP binding site [chemical binding]; other site 272942001085 Q-loop/lid; other site 272942001086 ABC transporter signature motif; other site 272942001087 Walker B; other site 272942001088 D-loop; other site 272942001089 H-loop/switch region; other site 272942001090 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 272942001091 catalytic core [active] 272942001092 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...; Region: AAK_NAGK-C; cd04250 272942001093 feedback inhibition sensing region; other site 272942001094 homohexameric interface [polypeptide binding]; other site 272942001095 nucleotide binding site [chemical binding]; other site 272942001096 N-acetyl-L-glutamate binding site [chemical binding]; other site 272942001097 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272942001098 classical (c) SDRs; Region: SDR_c; cd05233 272942001099 NAD(P) binding site [chemical binding]; other site 272942001100 active site 272942001101 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 272942001102 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 272942001103 G1 box; other site 272942001104 GTP/Mg2+ binding site [chemical binding]; other site 272942001105 Switch I region; other site 272942001106 G2 box; other site 272942001107 G3 box; other site 272942001108 Switch II region; other site 272942001109 G4 box; other site 272942001110 G5 box; other site 272942001111 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 272942001112 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 272942001113 MOSC domain; Region: MOSC; pfam03473 272942001114 membrane protein insertase; Provisional; Region: PRK01318 272942001115 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 272942001116 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272942001117 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 272942001118 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 272942001119 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...; Region: Alpha_ANH_like_II; cd01993 272942001120 Ligand Binding Site [chemical binding]; other site 272942001121 Domain of unknown function DUF37; Region: DUF37; cl00506 272942001122 Ribonuclease P; Region: Ribonuclease_P; cl00457 272942001123 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 272942001124 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 trans-...; Region: HisKA; cl00080 272942001125 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 272942001126 ATP binding site [chemical binding]; other site 272942001127 Mg2+ binding site [ion binding]; other site 272942001128 G-X-G motif; other site 272942001129 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 272942001130 active site/substrate binding site [active] 272942001131 tetramer interface [polypeptide binding]; other site 272942001132 peptidase T; Region: peptidase-T; TIGR01882 272942001133 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 272942001134 metal binding site [ion binding]; metal-binding site 272942001135 dimer interface [polypeptide binding]; other site 272942001136 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 272942001137 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 272942001138 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 272942001139 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...; Region: S1_Tex; cd05685 272942001140 RNA binding site [nucleotide binding]; other site 272942001141 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 272942001142 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 272942001143 ligand binding site [chemical binding]; other site 272942001144 flexible hinge region; other site 272942001145 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain...; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 272942001146 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942001147 metal binding triad; other site 272942001148 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 272942001149 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 272942001150 Walker A/P-loop; other site 272942001151 ATP binding site [chemical binding]; other site 272942001152 Q-loop/lid; other site 272942001153 ABC transporter signature motif; other site 272942001154 Walker B; other site 272942001155 D-loop; other site 272942001156 H-loop/switch region; other site 272942001157 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272942001158 FtsX-like permease family; Region: FtsX; pfam02687 272942001159 macrolide transporter subunit MacA; Provisional; Region: PRK11578 272942001160 Protein of Unknown function (DUF1690); Region: DUF1690; pfam07956 272942001161 ATPase MipZ; Region: MipZ; pfam09140 272942001162 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...; Region: ParA; cd02042 272942001163 P-loop; other site 272942001164 Magnesium ion binding site [ion binding]; other site 272942001165 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 272942001166 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 272942001167 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 272942001168 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 272942001169 RimM N-terminal domain; Region: RimM; pfam01782 272942001170 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 272942001171 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...; Region: PRCH; cl09959 272942001172 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 272942001173 Chorismate mutase type II; Region: CM_2; cl00693 272942001174 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942001175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942001176 signal recognition particle protein; Provisional; Region: PRK10867 272942001177 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272942001178 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942001179 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272942001180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001182 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 272942001183 dimerization interface [polypeptide binding]; other site 272942001184 OpgC protein; Region: OpgC_C; cl10497 272942001185 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 272942001186 Ligand binding site [chemical binding]; other site 272942001187 DXD motif; other site 272942001188 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 272942001189 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 272942001190 Citrate transporter; Region: CitMHS; pfam03600 272942001191 transmembrane helices; other site 272942001192 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 272942001193 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 272942001194 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942001195 catalytic residue [active] 272942001196 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942001197 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942001198 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272942001199 dihydrodipicolinate synthase; Region: dapA; TIGR00674 272942001200 dimer interface [polypeptide binding]; other site 272942001201 active site 272942001202 catalytic residue [active] 272942001203 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272942001204 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 272942001205 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942001206 catalytic residue [active] 272942001207 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; cl12011 272942001208 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942001209 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942001210 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 272942001211 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 272942001212 UbiA prenyltransferase family; Region: UbiA; cl00337 272942001213 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942001214 ligand binding site [chemical binding]; other site 272942001215 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272942001216 tandem repeat interface [polypeptide binding]; other site 272942001217 oligomer interface [polypeptide binding]; other site 272942001218 active site residues [active] 272942001219 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272942001220 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272942001221 GIY-YIG motif/motif A; other site 272942001222 active site 272942001223 catalytic site [active] 272942001224 putative DNA binding site [nucleotide binding]; other site 272942001225 metal binding site [ion binding]; metal-binding site 272942001226 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272942001227 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 272942001228 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 272942001229 FeS/SAM binding site; other site 272942001230 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 272942001231 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272942001232 Domain of unknown function (DUF205); Region: DUF205; cl00410 272942001233 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...; Region: metallo-dependent_hydrolases; cl00281 272942001234 dihydroorotase; Validated; Region: PRK09059 272942001235 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 272942001236 active site 272942001237 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 272942001238 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272942001239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942001240 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 272942001241 Fe-S cluster binding site [ion binding]; other site 272942001242 active site 272942001243 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 272942001244 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 272942001245 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 272942001246 SUA5 domain; Region: SUA5; pfam03481 272942001247 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942001248 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942001249 active site 272942001250 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 272942001251 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942001252 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 272942001253 AzlC protein; Region: AzlC; cl00570 272942001254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942001255 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly-; Region: nylC_like; cd02252 272942001256 putative active site pocket [active] 272942001257 cleavage site 272942001258 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 272942001259 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 272942001260 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942001261 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 272942001262 tetramerization interface [polypeptide binding]; other site 272942001263 NAD(P) binding site [chemical binding]; other site 272942001264 catalytic residues [active] 272942001265 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 272942001266 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 272942001267 NADP binding site [chemical binding]; other site 272942001268 homodimer interface [polypeptide binding]; other site 272942001269 active site 272942001270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001271 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 272942001272 dimerization interface [polypeptide binding]; other site 272942001273 EamA-like transporter family; Region: EamA; cl01037 272942001274 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272942001275 EamA-like transporter family; Region: EamA; cl01037 272942001276 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942001277 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 272942001278 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 272942001279 putative active site [active] 272942001280 putative FMN binding site [chemical binding]; other site 272942001281 putative substrate binding site [chemical binding]; other site 272942001282 putative catalytic residue [active] 272942001283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942001284 pyruvate kinase; Validated; Region: PRK08187 272942001285 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 272942001286 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 272942001287 domain interfaces; other site 272942001288 active site 272942001289 aspartate kinase; Reviewed; Region: PRK06635 272942001290 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 272942001291 putative nucleotide binding site [chemical binding]; other site 272942001292 putative catalytic residues [active] 272942001293 putative Mg ion binding site [ion binding]; other site 272942001294 putative aspartate binding site [chemical binding]; other site 272942001295 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 272942001296 putative allosteric regulatory site; other site 272942001297 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 272942001298 putative allosteric regulatory residue; other site 272942001299 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 272942001300 GAF domain; Region: GAF; cl00853 272942001301 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272942001302 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272942001303 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 272942001304 Peptidase family M48; Region: Peptidase_M48; cl12018 272942001305 pantoate--beta-alanine ligase; Region: panC; TIGR00018 272942001306 Pantoate-beta-alanine ligase; Region: PanC; cd00560 272942001307 active site 272942001308 ATP-binding site [chemical binding]; other site 272942001309 pantoate-binding site; other site 272942001310 HXXH motif; other site 272942001311 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 272942001312 oligomerization interface [polypeptide binding]; other site 272942001313 active site 272942001314 metal binding site [ion binding]; metal-binding site 272942001315 Cupin domain; Region: Cupin_2; cl09118 272942001316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942001317 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942001318 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272942001319 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272942001320 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 272942001321 active site 272942001322 multidrug efflux protein; Reviewed; Region: PRK09579 272942001323 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942001324 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 272942001325 acyl-CoA esterase; Provisional; Region: PRK10673 272942001326 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 272942001327 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 272942001328 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...; Region: SHMT; cd00378 272942001329 dimer interface [polypeptide binding]; other site 272942001330 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272942001331 active site 272942001332 folate binding site [chemical binding]; other site 272942001333 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272942001334 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942001335 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 272942001336 active site 272942001337 phosphorylation site [posttranslational modification] 272942001338 intermolecular recognition site; other site 272942001339 dimerization interface [polypeptide binding]; other site 272942001340 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...; Region: AAA; cd00009 272942001341 Walker A motif; other site 272942001342 ATP binding site [chemical binding]; other site 272942001343 Walker B motif; other site 272942001344 arginine finger; other site 272942001345 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942001346 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 trans-...; Region: HisKA; cl00080 272942001347 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 272942001348 ATP binding site [chemical binding]; other site 272942001349 Mg2+ binding site [ion binding]; other site 272942001350 G-X-G motif; other site 272942001351 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942001352 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 272942001353 active site 272942001354 phosphorylation site [posttranslational modification] 272942001355 intermolecular recognition site; other site 272942001356 dimerization interface [polypeptide binding]; other site 272942001357 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 272942001358 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 272942001359 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942001360 malic enzyme; Reviewed; Region: PRK12862 272942001361 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272942001362 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272942001363 putative NAD(P) binding site [chemical binding]; other site 272942001364 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272942001365 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 272942001366 active site 272942001367 catalytic motif [active] 272942001368 Zn binding site [ion binding]; other site 272942001369 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 272942001370 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272942001371 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272942001372 Sulfatase; Region: Sulfatase; cl10460 272942001373 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 272942001374 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942001375 Sporulation related domain; Region: SPOR; cl10051 272942001376 EamA-like transporter family; Region: EamA; cl01037 272942001377 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272942001378 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 272942001379 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...; Region: TM_PBP2; cd06261 272942001380 dimer interface [polypeptide binding]; other site 272942001381 conserved gate region; other site 272942001382 putative PBP binding loops; other site 272942001383 ABC-ATPase subunit interface; other site 272942001384 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272942001385 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...; Region: PBPb; cd00134 272942001386 substrate binding pocket [chemical binding]; other site 272942001387 membrane-bound complex binding site; other site 272942001388 hinge residues; other site 272942001389 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 272942001390 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...; Region: ThiF_MoeB_HesA_family; cd00757 272942001391 ATP binding site [chemical binding]; other site 272942001392 substrate interface [chemical binding]; other site 272942001393 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272942001394 trimer interface [polypeptide binding]; other site 272942001395 active site 272942001396 Flavoprotein; Region: Flavoprotein; cl08021 272942001397 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 272942001398 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 272942001399 Protein of unknown function, DUF399; Region: DUF399; cl01139 272942001400 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 272942001401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942001402 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942001403 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942001404 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272942001405 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 272942001406 putative N-terminal domain interface [polypeptide binding]; other site 272942001407 putative dimer interface [polypeptide binding]; other site 272942001408 putative substrate binding pocket (H-site) [chemical binding]; other site 272942001409 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 272942001410 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...; Region: AAA; cd00009 272942001411 Walker A motif; other site 272942001412 ATP binding site [chemical binding]; other site 272942001413 Walker B motif; other site 272942001414 arginine finger; other site 272942001415 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272942001416 glutathione synthetase; Provisional; Region: PRK05246 272942001417 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 272942001418 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942001419 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 272942001420 Predicted methyltransferases [General function prediction only]; Region: COG0313 272942001421 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942001422 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 272942001423 putative ligand binding site [chemical binding]; other site 272942001424 PII uridylyl-transferase; Provisional; Region: PRK05092 272942001425 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942001426 metal binding triad; other site 272942001427 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272942001428 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272942001429 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-...; Region: CBS_pair; cl09141 272942001430 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 272942001431 integral membrane protein MviN; Region: mviN; TIGR01695 272942001432 Rhomboid family; Region: Rhomboid; cl11446 272942001433 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 272942001434 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272942001435 active site 272942001436 HIGH motif; other site 272942001437 dimer interface [polypeptide binding]; other site 272942001438 KMSKS motif; other site 272942001439 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 272942001440 MatE; Region: MatE; cl10513 272942001441 MatE; Region: MatE; cl10513 272942001442 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 272942001443 CoenzymeA binding site [chemical binding]; other site 272942001444 subunit interaction site [polypeptide binding]; other site 272942001445 PHB binding site; other site 272942001446 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 272942001447 CoenzymeA binding site [chemical binding]; other site 272942001448 subunit interaction site [polypeptide binding]; other site 272942001449 PHB binding site; other site 272942001450 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 272942001451 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272942001452 DNA binding residues [nucleotide binding] 272942001453 putative dimer interface [polypeptide binding]; other site 272942001454 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 272942001455 DNA binding residues [nucleotide binding] 272942001456 putative dimer interface [polypeptide binding]; other site 272942001457 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 272942001458 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 272942001459 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942001460 active site 272942001461 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 272942001462 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 272942001463 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 272942001464 B1 nucleotide binding pocket [chemical binding]; other site 272942001465 B2 nucleotide binding pocket [chemical binding]; other site 272942001466 CAS motifs; other site 272942001467 Active site [active] 272942001468 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 272942001469 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 272942001470 NAD(P) binding site [chemical binding]; other site 272942001471 COQ9; Region: COQ9; cl14819 272942001472 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 272942001473 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942001474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942001475 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942001476 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942001477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001478 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 272942001479 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 272942001480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942001481 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 272942001482 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...; Region: GST_N_Ure2p_like; cd03048 272942001483 C-terminal domain interface [polypeptide binding]; other site 272942001484 GSH binding site (G-site) [chemical binding]; other site 272942001485 dimer interface [polypeptide binding]; other site 272942001486 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 272942001487 dimer interface [polypeptide binding]; other site 272942001488 N-terminal domain interface [polypeptide binding]; other site 272942001489 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 272942001490 active site 272942001491 dimerization interface [polypeptide binding]; other site 272942001492 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 272942001493 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272942001494 putative substrate translocation pore; other site 272942001495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001497 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 272942001498 putative dimerization interface [polypeptide binding]; other site 272942001499 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 272942001500 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...; Region: MTHFR; cd00537 272942001501 FAD binding site [chemical binding]; other site 272942001502 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 272942001503 CoenzymeA binding site [chemical binding]; other site 272942001504 subunit interaction site [polypeptide binding]; other site 272942001505 PHB binding site; other site 272942001506 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 272942001507 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 272942001508 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 272942001509 dimer interface [polypeptide binding]; other site 272942001510 active site 272942001511 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942001512 catalytic residues [active] 272942001513 substrate binding site [chemical binding]; other site 272942001514 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942001515 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001516 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 272942001517 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 272942001518 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 272942001519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942001520 active site 272942001521 HIGH motif; other site 272942001522 nucleotide binding site [chemical binding]; other site 272942001523 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272942001524 active site 272942001525 KMSKS motif; other site 272942001526 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 272942001527 tRNA binding surface [nucleotide binding]; other site 272942001528 anticodon binding site; other site 272942001529 hypothetical protein; Validated; Region: PRK08238 272942001530 UbiA prenyltransferase family; Region: UbiA; cl00337 272942001531 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 272942001532 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942001533 catalytic residue [active] 272942001534 SAF domain; Region: SAF; cl00555 272942001535 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 272942001536 BON domain; Region: BON; cl02771 272942001537 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 272942001538 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942001539 ligand binding site [chemical binding]; other site 272942001540 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 272942001541 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...; Region: CpaE_like; cd03111 272942001542 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 272942001543 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...; Region: VirB11-like_ATPase; cd01130 272942001544 ATP binding site [chemical binding]; other site 272942001545 Walker A motif; other site 272942001546 hexamer interface [polypeptide binding]; other site 272942001547 Walker B motif; other site 272942001548 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 272942001549 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 272942001550 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 272942001551 TPR motif; other site 272942001552 binding surface 272942001553 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272942001554 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 272942001555 binding surface 272942001556 TPR motif; other site 272942001557 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 272942001558 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272942001559 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 272942001560 TPR motif; other site 272942001561 binding surface 272942001562 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 272942001563 binding surface 272942001564 TPR motif; other site 272942001565 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 272942001566 binding surface 272942001567 TPR motif; other site 272942001568 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 272942001569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942001570 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 272942001571 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 272942001572 domain; Region: GreA_GreB_N; pfam03449 272942001573 C-term; Region: GreA_GreB; pfam01272 272942001574 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 272942001575 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 272942001576 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942001577 catalytic residue [active] 272942001578 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 272942001579 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 272942001580 dimer interface [polypeptide binding]; other site 272942001581 active site 272942001582 Cupin domain; Region: Cupin_2; cl09118 272942001583 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 272942001584 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 272942001585 substrate binding site [chemical binding]; other site 272942001586 oxyanion hole (OAH) forming residues; other site 272942001587 trimer interface [polypeptide binding]; other site 272942001588 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 272942001589 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272942001590 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272942001591 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 272942001592 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 272942001593 active site 272942001594 Zn binding site [ion binding]; other site 272942001595 Cation efflux family; Region: Cation_efflux; cl00316 272942001596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 272942001597 Bacterial SH3 domain; Region: SH3_3; cl02551 272942001598 Bacterial SH3 domain; Region: SH3_3; cl02551 272942001599 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272942001600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942001601 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942001602 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942001603 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 272942001604 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942001605 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 272942001606 active site 272942001607 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 272942001608 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 272942001609 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942001610 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942001611 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 272942001612 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272942001613 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942001614 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942001615 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 272942001616 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942001617 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942001618 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 272942001619 IMP binding site; other site 272942001620 dimer interface [polypeptide binding]; other site 272942001621 partial ornithine binding site; other site 272942001622 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272942001623 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 272942001624 dimer interface [polypeptide binding]; other site 272942001625 anticodon binding site; other site 272942001626 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...; Region: class_II_aaRS-like_core; cl00268 272942001627 motif 1; other site 272942001628 dimer interface [polypeptide binding]; other site 272942001629 active site 272942001630 motif 2; other site 272942001631 GAD domain; Region: GAD; pfam02938 272942001632 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...; Region: class_II_aaRS-like_core; cl00268 272942001633 active site 272942001634 motif 3; other site 272942001635 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 272942001636 Protein of unknown function (DUF1501); Region: DUF1501; cl01699 272942001637 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942001638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942001639 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 272942001640 active site 272942001641 phosphorylation site [posttranslational modification] 272942001642 intermolecular recognition site; other site 272942001643 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 272942001644 dimer interface [polypeptide binding]; other site 272942001645 substrate binding site [chemical binding]; other site 272942001646 metal binding site [ion binding]; metal-binding site 272942001647 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 272942001648 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272942001649 FMN binding site [chemical binding]; other site 272942001650 dimer interface [polypeptide binding]; other site 272942001651 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 272942001652 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 272942001653 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942001654 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942001655 NAD(P) binding site [chemical binding]; other site 272942001656 catalytic residues [active] 272942001657 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942001658 NAD(P) binding site [chemical binding]; other site 272942001659 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 272942001660 intersubunit interface [polypeptide binding]; other site 272942001661 active site 272942001662 catalytic residue [active] 272942001663 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 272942001664 putative GSH binding site [chemical binding]; other site 272942001665 catalytic residues [active] 272942001666 BolA-like protein; Region: BolA; cl00386 272942001667 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 272942001668 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 272942001669 dimerization interface [polypeptide binding]; other site 272942001670 ATP binding site [chemical binding]; other site 272942001671 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 272942001672 dimerization interface [polypeptide binding]; other site 272942001673 ATP binding site [chemical binding]; other site 272942001674 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942001675 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001676 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 272942001677 putative effector binding pocket; other site 272942001678 dimerization interface [polypeptide binding]; other site 272942001679 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272942001680 Protein of unknown function (DUF805); Region: DUF805; cl01224 272942001681 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 272942001682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942001683 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 272942001684 CcmE; Region: CcmE; cl00994 272942001685 Predicted lysozyme (DUF847); Region: DUF847; pfam05838 272942001686 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 272942001687 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 272942001688 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 272942001689 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272942001690 active site 272942001691 HIGH motif; other site 272942001692 KMSKS motif; other site 272942001693 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272942001694 tRNA binding surface [nucleotide binding]; other site 272942001695 anticodon binding site; other site 272942001696 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 272942001697 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942001698 metal binding site [ion binding]; metal-binding site 272942001699 active site 272942001700 I-site; other site 272942001701 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 272942001702 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 272942001703 S-adenosylmethionine binding site [chemical binding]; other site 272942001704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001705 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 272942001706 TOBE domain; Region: TOBE_2; cl01440 272942001707 TOBE domain; Region: TOBE_2; cl01440 272942001708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001709 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 272942001710 TOBE domain; Region: TOBE_2; cl01440 272942001711 TOBE domain; Region: TOBE_2; cl01440 272942001712 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 272942001713 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...; Region: TM_PBP2; cd06261 272942001714 dimer interface [polypeptide binding]; other site 272942001715 conserved gate region; other site 272942001716 putative PBP binding loops; other site 272942001717 ABC-ATPase subunit interface; other site 272942001718 ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of...; Region: ABC_ModC_molybdenum_transporter; cd03297 272942001719 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 272942001720 Walker A/P-loop; other site 272942001721 ATP binding site [chemical binding]; other site 272942001722 Q-loop/lid; other site 272942001723 ABC transporter signature motif; other site 272942001724 Walker B; other site 272942001725 D-loop; other site 272942001726 H-loop/switch region; other site 272942001727 TOBE domain; Region: TOBE_2; cl01440 272942001728 molybdenum transport protein ModD; Provisional; Region: PRK06096 272942001729 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl12019 272942001730 active site 272942001731 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 272942001732 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 272942001733 FeS/SAM binding site; other site 272942001734 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 272942001735 Nif-specific regulatory protein; Region: nifA; TIGR01817 272942001736 GAF domain; Region: GAF; cl00853 272942001737 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...; Region: AAA; cd00009 272942001738 Walker A motif; other site 272942001739 ATP binding site [chemical binding]; other site 272942001740 Walker B motif; other site 272942001741 arginine finger; other site 272942001742 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942001743 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272942001744 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 272942001745 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272942001746 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272942001747 NifU-like domain; Region: NifU; cl00484 272942001748 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 272942001749 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 272942001750 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-...; Region: Nitrogenase_MoFe_beta; cd01974 272942001751 MoFe protein beta/alpha subunit interactions; other site 272942001752 Beta subunit P cluster binding residues; other site 272942001753 MoFe protein beta subunit/Fe protein contacts; other site 272942001754 MoFe protein dimer/ dimer interactions; other site 272942001755 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 272942001756 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 272942001757 MoFe protein alpha/beta subunit interactions; other site 272942001758 Alpha subunit P cluster binding residues; other site 272942001759 FeMoco binding residues [chemical binding]; other site 272942001760 MoFe protein alpha subunit/Fe protein contacts; other site 272942001761 MoFe protein dimer/ dimer interactions; other site 272942001762 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 272942001763 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 272942001764 Nucleotide-binding sites [chemical binding]; other site 272942001765 Walker A motif; other site 272942001766 Switch I region of nucleotide binding site; other site 272942001767 Fe4S4 binding sites [ion binding]; other site 272942001768 Switch II region of nucleotide binding site; other site 272942001769 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 272942001770 catalytic loop [active] 272942001771 iron binding site [ion binding]; other site 272942001772 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 272942001773 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 272942001774 ligand binding site [chemical binding]; other site 272942001775 flexible hinge region; other site 272942001776 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001777 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 272942001778 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 272942001779 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 272942001780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942001781 Walker A motif; other site 272942001782 ATP binding site [chemical binding]; other site 272942001783 Walker B motif; other site 272942001784 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 272942001785 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 272942001786 multimerization interface [polypeptide binding]; other site 272942001787 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 272942001788 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 272942001789 dimer interface [polypeptide binding]; other site 272942001790 catalytic residue [active] 272942001791 metal binding site [ion binding]; metal-binding site 272942001792 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 272942001793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001794 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 272942001795 putative dimerization interface [polypeptide binding]; other site 272942001796 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 272942001797 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 272942001798 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942001799 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 272942001800 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 272942001801 GAF domain; Region: GAF; cl00853 272942001802 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...; Region: AAA; cd00009 272942001803 Walker A motif; other site 272942001804 ATP binding site [chemical binding]; other site 272942001805 Walker B motif; other site 272942001806 arginine finger; other site 272942001807 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942001808 nitrogenase reductase; Reviewed; Region: nifH; PRK13233 272942001809 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 272942001810 Nucleotide-binding sites [chemical binding]; other site 272942001811 Switch I region of nucleotide binding site; other site 272942001812 Fe4S4 binding sites [ion binding]; other site 272942001813 Switch II region of nucleotide binding site; other site 272942001814 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 272942001815 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 272942001816 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; cl03910 272942001817 Fe-only nitrogenase, beta subunit; Region: anfK_nitrog; TIGR02931 272942001818 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 272942001819 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl09804 272942001820 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 272942001821 putative active site pocket [active] 272942001822 dimerization interface [polypeptide binding]; other site 272942001823 putative catalytic residue [active] 272942001824 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272942001825 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 272942001826 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 272942001827 MoxR-like ATPases [General function prediction only]; Region: COG0714 272942001828 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942001829 Protein of unknown function DUF58; Region: DUF58; pfam01882 272942001830 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 272942001831 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272942001832 M28, and M42; Region: Zinc_peptidase_like; cl14876 272942001833 metal binding site [ion binding]; metal-binding site 272942001834 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 272942001835 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 272942001836 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 272942001837 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272942001838 active site 272942001839 dimer interface [polypeptide binding]; other site 272942001840 effector binding site; other site 272942001841 TSCPD domain; Region: TSCPD; cl14834 272942001842 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 272942001843 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 272942001844 manganese transport regulator MntR; Provisional; Region: PRK11050 272942001845 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942001846 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 272942001847 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 272942001848 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 272942001849 Integral membrane protein TerC family; Region: TerC; cl10468 272942001850 K+ potassium transporter; Region: K_trans; cl01227 272942001851 potassium uptake protein; Region: kup; TIGR00794 272942001852 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 272942001853 DNA-binding site [nucleotide binding]; DNA binding site 272942001854 RNA-binding motif; other site 272942001855 nickel responsive regulator; Provisional; Region: PRK02967 272942001856 hypothetical protein; Region: PHA01748 272942001857 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 272942001858 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 272942001859 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 272942001860 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942001861 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 272942001862 Outer membrane efflux protein; Region: OEP; pfam02321 272942001863 Outer membrane efflux protein; Region: OEP; pfam02321 272942001864 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 272942001865 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272942001866 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942001867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942001868 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272942001869 Walker A/P-loop; other site 272942001870 ATP binding site [chemical binding]; other site 272942001871 Q-loop/lid; other site 272942001872 ABC transporter signature motif; other site 272942001873 Walker B; other site 272942001874 D-loop; other site 272942001875 H-loop/switch region; other site 272942001876 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942001877 Walker A/P-loop; other site 272942001878 ATP binding site [chemical binding]; other site 272942001879 Q-loop/lid; other site 272942001880 ABC transporter signature motif; other site 272942001881 Walker B; other site 272942001882 D-loop; other site 272942001883 H-loop/switch region; other site 272942001884 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272942001885 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272942001886 Response regulator receiver domain; Region: Response_reg; pfam00072 272942001887 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 272942001888 active site 272942001889 phosphorylation site [posttranslational modification] 272942001890 intermolecular recognition site; other site 272942001891 dimerization interface [polypeptide binding]; other site 272942001892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942001893 metal binding site [ion binding]; metal-binding site 272942001894 active site 272942001895 I-site; other site 272942001896 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 272942001897 CHASE4 domain; Region: CHASE4; cl01308 272942001898 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942001899 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 272942001900 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272942001901 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 272942001902 dimer interface [polypeptide binding]; other site 272942001903 putative functional site; other site 272942001904 putative MPT binding site; other site 272942001905 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272942001906 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 272942001907 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...; Region: PBPb; cd00134 272942001908 substrate binding pocket [chemical binding]; other site 272942001909 membrane-bound complex binding site; other site 272942001910 hinge residues; other site 272942001911 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942001912 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...; Region: TM_PBP2; cd06261 272942001913 ABC-ATPase subunit interface; other site 272942001914 putative PBP binding loops; other site 272942001915 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...; Region: TM_PBP2; cd06261 272942001916 dimer interface [polypeptide binding]; other site 272942001917 conserved gate region; other site 272942001918 putative PBP binding loops; other site 272942001919 ABC-ATPase subunit interface; other site 272942001920 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 272942001921 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; Region: ABC_HisP_GlnQ_permeases; cd03262 272942001922 Walker A/P-loop; other site 272942001923 ATP binding site [chemical binding]; other site 272942001924 Q-loop/lid; other site 272942001925 ABC transporter signature motif; other site 272942001926 Walker B; other site 272942001927 D-loop; other site 272942001928 H-loop/switch region; other site 272942001929 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 272942001930 o-succinylbenzoic acid (OSB) synthetase; Region: menC_lowGC/arch; TIGR01928 272942001931 active site 272942001932 octamer interface [polypeptide binding]; other site 272942001933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942001934 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 272942001935 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272942001936 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942001937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942001938 Walker A/P-loop; other site 272942001939 ATP binding site [chemical binding]; other site 272942001940 Q-loop/lid; other site 272942001941 ABC transporter signature motif; other site 272942001942 Walker B; other site 272942001943 D-loop; other site 272942001944 H-loop/switch region; other site 272942001945 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 272942001946 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 272942001947 Virulence factor SrfB; Region: SrfB; pfam07520 272942001948 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272942001949 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942001950 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 272942001951 PAS fold; Region: PAS_4; pfam08448 272942001952 PAS fold; Region: PAS_4; pfam08448 272942001953 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942001954 metal binding site [ion binding]; metal-binding site 272942001955 active site 272942001956 I-site; other site 272942001957 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 272942001958 Nitrate and nitrite sensing; Region: NIT; pfam08376 272942001959 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942001960 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942001961 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 272942001962 PAS fold; Region: PAS_3; pfam08447 272942001963 putative active site [active] 272942001964 heme pocket [chemical binding]; other site 272942001965 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 272942001966 PAS fold; Region: PAS_3; pfam08447 272942001967 putative active site [active] 272942001968 heme pocket [chemical binding]; other site 272942001969 PAS fold; Region: PAS; pfam00989 272942001970 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 272942001971 putative active site [active] 272942001972 heme pocket [chemical binding]; other site 272942001973 PAS fold; Region: PAS_3; pfam08447 272942001974 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942001975 metal binding site [ion binding]; metal-binding site 272942001976 active site 272942001977 I-site; other site 272942001978 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 272942001979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942001980 Coenzyme A binding pocket [chemical binding]; other site 272942001981 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 272942001982 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272942001983 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 272942001984 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272942001985 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 272942001986 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 272942001987 Sulfatase; Region: Sulfatase; cl10460 272942001988 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 272942001989 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 272942001990 active site 272942001991 phosphorylation site [posttranslational modification] 272942001992 intermolecular recognition site; other site 272942001993 dimerization interface [polypeptide binding]; other site 272942001994 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...; Region: trans_reg_C; cd00383 272942001995 DNA binding site [nucleotide binding] 272942001996 sensor protein QseC; Provisional; Region: PRK10337 272942001997 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 trans-...; Region: HisKA; cl00080 272942001998 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 272942001999 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 272942002000 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272942002001 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 272942002002 Protein of unknown function (DUF3623); Region: DUF3623; cl11843 272942002003 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 272942002004 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 272942002005 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...; Region: PRCH; cd00226 272942002006 subunit C interaction residues; other site 272942002007 subunit M interaction residues [polypeptide binding]; other site 272942002008 subunit L interaction residues [polypeptide binding]; other site 272942002009 putative proton transfer pathway, P1; other site 272942002010 putative proton transfer pathway, P2; other site 272942002011 PUCC protein; Region: PUCC; pfam03209 272942002012 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 272942002013 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 272942002014 S-adenosylmethionine binding site [chemical binding]; other site 272942002015 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; cl12011 272942002016 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 272942002017 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB...; Region: Bchl_like; cd02032 272942002018 P-loop; other site 272942002019 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 272942002020 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 272942002021 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 272942002022 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls...; Region: Pchlide_reductase_B; cd01981 272942002023 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 272942002024 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 272942002025 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 272942002026 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 272942002027 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 272942002028 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 272942002029 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 272942002030 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 272942002031 putative active site [active] 272942002032 heme pocket [chemical binding]; other site 272942002033 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942002034 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 272942002035 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 272942002036 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 272942002037 FeS/SAM binding site; other site 272942002038 Heme NO binding; Region: HNOB; cl15268 272942002039 UbiA prenyltransferase family; Region: UbiA; cl00337 272942002040 PUCC protein; Region: PUCC; pfam03209 272942002041 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 272942002042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002043 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 272942002044 active site 272942002045 metal binding site [ion binding]; metal-binding site 272942002046 nudix motif; other site 272942002047 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 272942002048 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 272942002049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942002050 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase...; Region: vWA_Magnesium_chelatase; cd01451 272942002051 metal ion-dependent adhesion site (MIDAS); other site 272942002052 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 272942002053 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...; Region: AAA; cd00009 272942002054 Walker A motif; other site 272942002055 ATP binding site [chemical binding]; other site 272942002056 Walker B motif; other site 272942002057 arginine finger; other site 272942002058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002059 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 272942002060 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 272942002061 active site lid residues [active] 272942002062 substrate binding pocket [chemical binding]; other site 272942002063 catalytic residues [active] 272942002064 substrate-Mg2+ binding site; other site 272942002065 aspartate-rich region 1; other site 272942002066 aspartate-rich region 2; other site 272942002067 TspO/MBR family; Region: TspO_MBR; cl01379 272942002068 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 272942002069 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 272942002070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002071 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272942002072 substrate binding pocket [chemical binding]; other site 272942002073 chain length determination region; other site 272942002074 substrate-Mg2+ binding site; other site 272942002075 catalytic residues [active] 272942002076 aspartate-rich region 1; other site 272942002077 active site lid residues [active] 272942002078 aspartate-rich region 2; other site 272942002079 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 272942002080 O-methyltransferase; Region: Methyltransf_2; pfam00891 272942002081 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 272942002082 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 272942002083 putative NAD(P) binding site [chemical binding]; other site 272942002084 Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L...; Region: BchX; cd02033 272942002085 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 272942002086 P-loop; other site 272942002087 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 272942002088 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 272942002089 Chlide_reductase_Z : Z subunit of chlorophyllide (chlide) reductase (BchZ). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Z; cd01982 272942002090 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 272942002091 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 272942002092 PufQ cytochrome subunit; Region: PufQ; pfam05398 272942002093 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 272942002094 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 272942002095 subunit M interface; other site 272942002096 subunit H interface; other site 272942002097 quinone binding site; other site 272942002098 bacteriopheophytin binding site; other site 272942002099 bacteriochlorophyll binding site; other site 272942002100 cytochrome C subunit interface; other site 272942002101 Fe binding site [ion binding]; other site 272942002102 D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; Region: Photo_RC; cl08220 272942002103 pheophytin binding site; other site 272942002104 chlorophyll binding site; other site 272942002105 quinone binding site; other site 272942002106 Fe binding site [ion binding]; other site 272942002107 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 272942002108 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 272942002109 TPP-binding site; other site 272942002110 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 272942002111 PYR/PP interface [polypeptide binding]; other site 272942002112 dimer interface [polypeptide binding]; other site 272942002113 TPP binding site [chemical binding]; other site 272942002114 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942002115 Anti-sigma-K factor rskA; Region: RskA; cl02208 272942002116 RNA polymerase sigma factor; Provisional; Region: PRK12514 272942002117 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942002118 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...; Region: GSH_Peroxidase; cd00340 272942002119 catalytic residues [active] 272942002120 dimer interface [polypeptide binding]; other site 272942002121 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 272942002122 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 272942002123 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 272942002124 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272942002125 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272942002126 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...; Region: TM_PBP2; cd06261 272942002127 dimer interface [polypeptide binding]; other site 272942002128 conserved gate region; other site 272942002129 putative PBP binding loops; other site 272942002130 ABC-ATPase subunit interface; other site 272942002131 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942002132 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...; Region: TM_PBP2; cd06261 272942002133 dimer interface [polypeptide binding]; other site 272942002134 conserved gate region; other site 272942002135 putative PBP binding loops; other site 272942002136 ABC-ATPase subunit interface; other site 272942002137 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272942002138 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 272942002139 peptide binding site [polypeptide binding]; other site 272942002140 dimer interface [polypeptide binding]; other site 272942002141 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 272942002142 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 272942002143 Walker A/P-loop; other site 272942002144 ATP binding site [chemical binding]; other site 272942002145 Q-loop/lid; other site 272942002146 ABC transporter signature motif; other site 272942002147 Walker B; other site 272942002148 D-loop; other site 272942002149 H-loop/switch region; other site 272942002150 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942002151 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272942002152 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 272942002153 Walker A/P-loop; other site 272942002154 ATP binding site [chemical binding]; other site 272942002155 Q-loop/lid; other site 272942002156 ABC transporter signature motif; other site 272942002157 Walker B; other site 272942002158 D-loop; other site 272942002159 H-loop/switch region; other site 272942002160 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942002161 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942002162 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942002163 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272942002164 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 272942002165 metal binding site [ion binding]; metal-binding site 272942002166 putative dimer interface [polypeptide binding]; other site 272942002167 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 272942002168 Ligand Binding Site [chemical binding]; other site 272942002169 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 272942002170 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 272942002171 FeS/SAM binding site; other site 272942002172 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272942002173 kynureninase; Region: kynureninase; TIGR01814 272942002174 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 272942002175 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942002176 catalytic residue [active] 272942002177 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 272942002178 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 272942002179 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 272942002180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002181 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 272942002182 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 272942002183 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942002184 malate dehydrogenase; Reviewed; Region: PRK06223 272942002185 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 272942002186 NAD(P) binding site [chemical binding]; other site 272942002187 dimer interface [polypeptide binding]; other site 272942002188 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942002189 substrate binding site [chemical binding]; other site 272942002190 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 272942002191 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942002192 CoA-ligase; Region: Ligase_CoA; pfam00549 272942002193 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 272942002194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002195 CoA-ligase; Region: Ligase_CoA; pfam00549 272942002196 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 272942002197 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 272942002198 TPP-binding site [chemical binding]; other site 272942002199 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 272942002200 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 272942002201 E3 interaction surface; other site 272942002202 lipoyl attachment site [posttranslational modification]; other site 272942002203 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 272942002204 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 272942002205 E3 interaction surface; other site 272942002206 lipoyl attachment site [posttranslational modification]; other site 272942002207 e3 binding domain; Region: E3_binding; pfam02817 272942002208 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272942002209 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 272942002210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002211 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272942002212 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 272942002213 NnrU protein; Region: NnrU; cl01697 272942002214 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 272942002215 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 272942002216 putative active site [active] 272942002217 putative catalytic site [active] 272942002218 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 272942002219 putative active site [active] 272942002220 putative catalytic site [active] 272942002221 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 272942002222 Iron-sulfur protein interface; other site 272942002223 proximal quinone binding site [chemical binding]; other site 272942002224 SdhD (CybS) interface [polypeptide binding]; other site 272942002225 proximal heme binding site [chemical binding]; other site 272942002226 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the...; Region: SQR_TypeC_SdhD_like; cd03495 272942002227 putative SdhC subunit interface [polypeptide binding]; other site 272942002228 putative proximal heme binding site [chemical binding]; other site 272942002229 putative Iron-sulfur protein interface [polypeptide binding]; other site 272942002230 putative proximal quinone binding site; other site 272942002231 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 272942002232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002233 domain; Region: Succ_DH_flav_C; pfam02910 272942002234 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 272942002235 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 272942002236 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 272942002237 putative DNA binding site [nucleotide binding]; other site 272942002238 putative Zn2+ binding site [ion binding]; other site 272942002239 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 272942002240 ATP synthase A chain; Region: ATP-synt_A; cl00413 272942002241 ATP synthase subunit C; Region: ATP-synt_C; cl00466 272942002242 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 272942002243 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 272942002244 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 272942002245 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 272942002246 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 272942002247 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 272942002248 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 272942002249 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 272942002250 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 272942002251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942002252 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 272942002253 dimerization interface [polypeptide binding]; other site 272942002254 CTP synthetase; Validated; Region: pyrG; PRK05380 272942002255 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...; Region: CTGs; cd03113 272942002256 Catalytic site [active] 272942002257 Active site [active] 272942002258 UTP binding site [chemical binding]; other site 272942002259 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 272942002260 active site 272942002261 putative oxyanion hole; other site 272942002262 catalytic triad [active] 272942002263 Preprotein translocase SecG subunit; Region: SecG; cl09123 272942002264 adenylosuccinate synthetase; Provisional; Region: PRK01117 272942002265 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 r-...; Region: AdSS; cd03108 272942002266 GDP-binding site [chemical binding]; other site 272942002267 ACT binding site; other site 272942002268 IMP binding site; other site 272942002269 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 272942002270 Thiamine pyrophosphokinase; Region: TPK; cl09135 272942002271 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 272942002272 active site 272942002273 dimerization interface [polypeptide binding]; other site 272942002274 thiamine binding site [chemical binding]; other site 272942002275 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272942002276 EamA-like transporter family; Region: EamA; cl01037 272942002277 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942002278 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942002279 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 272942002280 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942002281 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942002282 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942002283 Cache domain; Region: Cache_2; cl07034 272942002284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 272942002285 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942002286 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942002287 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942002288 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 272942002289 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 272942002290 nickel binding site [ion binding]; other site 272942002291 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 272942002292 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942002293 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 trans-...; Region: HisKA; cl00080 272942002294 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 272942002295 ATP binding site [chemical binding]; other site 272942002296 Mg2+ binding site [ion binding]; other site 272942002297 G-X-G motif; other site 272942002298 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 272942002299 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 272942002300 Acylphosphatase; Region: Acylphosphatase; cl00551 272942002301 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 272942002302 HypF finger; Region: zf-HYPF; pfam07503 272942002303 HypF finger; Region: zf-HYPF; pfam07503 272942002304 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 272942002305 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 272942002306 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 272942002307 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 272942002308 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 272942002309 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 272942002310 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 272942002311 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 272942002312 putative substrate-binding site; other site 272942002313 nickel binding site [ion binding]; other site 272942002314 HupF/HypC family; Region: HupF_HypC; cl00394 272942002315 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as...; Region: HyaE; cd02965 272942002316 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 272942002317 Rubredoxin; Region: Rubredoxin; pfam00301 272942002318 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...; Region: rubredoxin; cd00730 272942002319 iron binding site [ion binding]; other site 272942002320 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 272942002321 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 272942002322 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942002323 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942002324 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 272942002325 active site 272942002326 phosphorylation site [posttranslational modification] 272942002327 intermolecular recognition site; other site 272942002328 dimerization interface [polypeptide binding]; other site 272942002329 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...; Region: AAA; cd00009 272942002330 Walker A motif; other site 272942002331 ATP binding site [chemical binding]; other site 272942002332 Walker B motif; other site 272942002333 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942002334 HupF/HypC family; Region: HupF_HypC; cl00394 272942002335 Hydrogenase formation hypA family; Region: HypD; cl12072 272942002336 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 272942002337 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 272942002338 dimerization interface [polypeptide binding]; other site 272942002339 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 272942002340 ATP binding site [chemical binding]; other site 272942002341 CheB methylesterase; Region: CheB_methylest; pfam01339 272942002342 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 272942002343 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272942002344 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; cl12011 272942002345 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 272942002346 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 272942002347 PAS fold; Region: PAS_4; pfam08448 272942002348 PAS fold; Region: PAS_4; pfam08448 272942002349 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 272942002350 PAS fold; Region: PAS_4; pfam08448 272942002351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942002352 metal binding site [ion binding]; metal-binding site 272942002353 active site 272942002354 I-site; other site 272942002355 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 272942002356 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272942002357 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 272942002358 putative ligand binding site [chemical binding]; other site 272942002359 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942002360 TM-ABC transporter signature motif; other site 272942002361 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942002362 TM-ABC transporter signature motif; other site 272942002363 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 272942002364 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...; Region: ABC_Carb_Monos_I; cd03216 272942002365 Walker A/P-loop; other site 272942002366 ATP binding site [chemical binding]; other site 272942002367 Q-loop/lid; other site 272942002368 ABC transporter signature motif; other site 272942002369 Walker B; other site 272942002370 D-loop; other site 272942002371 H-loop/switch region; other site 272942002372 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 272942002373 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 272942002374 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 272942002375 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 272942002376 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272942002377 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272942002378 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 272942002379 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 272942002380 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272942002381 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 272942002382 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 272942002383 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272942002384 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272942002385 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...; Region: DnaE_OBF; cd04485 272942002386 generic binding surface II; other site 272942002387 generic binding surface I; other site 272942002388 SlyX; Region: SlyX; cl01090 272942002389 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 272942002390 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 272942002391 dimer interface [polypeptide binding]; other site 272942002392 motif 1; other site 272942002393 motif 2; other site 272942002394 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...; Region: class_II_aaRS-like_core; cl00268 272942002395 active site 272942002396 motif 3; other site 272942002397 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 272942002398 anticodon binding site; other site 272942002399 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 272942002400 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...; Region: class_II_aaRS-like_core; cl00268 272942002401 motif 1; other site 272942002402 dimer interface [polypeptide binding]; other site 272942002403 active site 272942002404 motif 2; other site 272942002405 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...; Region: class_II_aaRS-like_core; cl00268 272942002406 ATP phosphoribosyltransferase; Region: HisG; cl15266 272942002407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002408 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272942002409 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 272942002410 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272942002411 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 272942002412 rod shape-determining protein MreC; Provisional; Region: PRK13922 272942002413 rod shape-determining protein MreC; Region: MreC; pfam04085 272942002414 rod shape-determining protein MreB; Provisional; Region: PRK13927 272942002415 Cell division protein FtsA; Region: FtsA; cl11496 272942002416 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 272942002417 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 272942002418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942002419 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 272942002420 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 272942002421 putative metal binding site [ion binding]; other site 272942002422 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...; Region: DnaJ; cl02542 272942002423 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272942002424 putative catalytic site [active] 272942002425 putative phosphate binding site [ion binding]; other site 272942002426 putative metal binding site [ion binding]; other site 272942002427 exopolyphosphatase; Region: exo_poly_only; TIGR03706 272942002428 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 272942002429 polyphosphate kinase; Provisional; Region: PRK05443 272942002430 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 272942002431 putative domain interface [polypeptide binding]; other site 272942002432 putative active site [active] 272942002433 catalytic site [active] 272942002434 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 272942002435 putative domain interface [polypeptide binding]; other site 272942002436 putative active site [active] 272942002437 catalytic site [active] 272942002438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942002439 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272942002440 Domain of unknown function DUF20; Region: UPF0118; cl00465 272942002441 transcriptional regulator; Provisional; Region: PRK10632 272942002442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942002443 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 272942002444 putative effector binding pocket; other site 272942002445 dimerization interface [polypeptide binding]; other site 272942002446 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 272942002447 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 272942002448 putative active site [active] 272942002449 metal binding site [ion binding]; metal-binding site 272942002450 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 272942002451 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 272942002452 NAD(P) binding site [chemical binding]; other site 272942002453 LDH/MDH dimer interface [polypeptide binding]; other site 272942002454 substrate binding site [chemical binding]; other site 272942002455 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272942002456 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 272942002457 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...; Region: GT1_MurG; cd03785 272942002458 active site 272942002459 homodimer interface [polypeptide binding]; other site 272942002460 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272942002461 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942002462 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942002463 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942002464 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 272942002465 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 272942002466 FAD binding domain; Region: FAD_binding_4; pfam01565 272942002467 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272942002468 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 272942002469 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272942002470 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942002471 cell division protein FtsQ; Provisional; Region: PRK05529 272942002472 Cell division protein FtsQ; Region: FtsQ; pfam03799 272942002473 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 272942002474 Cell division protein FtsA; Region: FtsA; cl11496 272942002475 Cell division protein FtsA; Region: FtsA; cl11496 272942002476 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 272942002477 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...; Region: FtsZ_type1; cd02201 272942002478 nucleotide binding site [chemical binding]; other site 272942002479 SulA interaction site; other site 272942002480 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 272942002481 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 272942002482 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 272942002483 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272942002484 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...; Region: ABC_RecN; cd03241 272942002485 Walker A/P-loop; other site 272942002486 ATP binding site [chemical binding]; other site 272942002487 Q-loop/lid; other site 272942002488 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...; Region: ABC_RecN; cd03241 272942002489 ABC transporter signature motif; other site 272942002490 Walker B; other site 272942002491 D-loop; other site 272942002492 H-loop/switch region; other site 272942002493 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 272942002494 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 272942002495 FAD binding domain; Region: FAD_binding_4; pfam01565 272942002496 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 272942002497 (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. (R)-hydratase contains a hot-dog fold similar to those of...; Region: R_hydratase; cd03449 272942002498 dimer interaction site [polypeptide binding]; other site 272942002499 substrate-binding tunnel; other site 272942002500 active site 272942002501 catalytic site [active] 272942002502 substrate binding site [chemical binding]; other site 272942002503 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272942002504 Acetokinase family; Region: Acetate_kinase; cl01029 272942002505 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272942002506 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 272942002507 active site 272942002508 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 272942002509 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 272942002510 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 272942002511 metal ion-dependent adhesion site (MIDAS); other site 272942002512 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 272942002513 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 272942002514 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 272942002515 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...; Region: DnaJ; cl02542 272942002516 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 272942002517 active site 272942002518 aminopeptidase N; Provisional; Region: pepN; PRK14015 272942002519 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 272942002520 Zn binding site [ion binding]; other site 272942002521 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272942002522 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272942002523 GatB domain; Region: GatB_Yqey; cl11497 272942002524 Protein of unknown function (DUF808); Region: DUF808; cl01002 272942002525 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 272942002526 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272942002527 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942002528 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...; Region: TM_PBP2; cd06261 272942002529 dimer interface [polypeptide binding]; other site 272942002530 conserved gate region; other site 272942002531 putative PBP binding loops; other site 272942002532 ABC-ATPase subunit interface; other site 272942002533 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272942002534 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272942002535 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...; Region: TM_PBP2; cd06261 272942002536 dimer interface [polypeptide binding]; other site 272942002537 conserved gate region; other site 272942002538 ABC-ATPase subunit interface; other site 272942002539 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272942002540 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 272942002541 Walker A/P-loop; other site 272942002542 ATP binding site [chemical binding]; other site 272942002543 Q-loop/lid; other site 272942002544 ABC transporter signature motif; other site 272942002545 Walker B; other site 272942002546 D-loop; other site 272942002547 H-loop/switch region; other site 272942002548 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942002549 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272942002550 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 272942002551 Walker A/P-loop; other site 272942002552 ATP binding site [chemical binding]; other site 272942002553 Q-loop/lid; other site 272942002554 ABC transporter signature motif; other site 272942002555 Walker B; other site 272942002556 D-loop; other site 272942002557 H-loop/switch region; other site 272942002558 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 272942002559 active site 272942002560 dimer interface [polypeptide binding]; other site 272942002561 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 272942002562 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272942002563 ATP binding site [chemical binding]; other site 272942002564 Mg++ binding site [ion binding]; other site 272942002565 motif III; other site 272942002566 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 272942002567 nucleotide binding region [chemical binding]; other site 272942002568 ATP-binding site [chemical binding]; other site 272942002569 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 272942002570 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 272942002571 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272942002572 active site 272942002573 HIGH motif; other site 272942002574 KMSK motif region; other site 272942002575 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272942002576 tRNA binding surface [nucleotide binding]; other site 272942002577 anticodon binding site; other site 272942002578 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 272942002579 Sporulation related domain; Region: SPOR; cl10051 272942002580 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272942002581 ScpA/B protein; Region: ScpA_ScpB; cl00598 272942002582 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 272942002583 enoyl-CoA hydratase; Validated; Region: PRK08139 272942002584 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 272942002585 substrate binding site [chemical binding]; other site 272942002586 oxyanion hole (OAH) forming residues; other site 272942002587 trimer interface [polypeptide binding]; other site 272942002588 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 272942002589 CoenzymeA binding site [chemical binding]; other site 272942002590 subunit interaction site [polypeptide binding]; other site 272942002591 PHB binding site; other site 272942002592 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; cl09110 272942002593 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; cl09110 272942002594 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 272942002595 23S rRNA interface [nucleotide binding]; other site 272942002596 L3 interface [polypeptide binding]; other site 272942002597 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 272942002598 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942002599 LysE type translocator; Region: LysE; cl00565 272942002600 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 272942002601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942002602 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 272942002603 dimerization interface [polypeptide binding]; other site 272942002604 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 272942002605 putative homotetramer interface [polypeptide binding]; other site 272942002606 putative homodimer interface [polypeptide binding]; other site 272942002607 putative metal binding site [ion binding]; other site 272942002608 putative homodimer-homodimer interface [polypeptide binding]; other site 272942002609 putative allosteric switch controlling residues; other site 272942002610 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 272942002611 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 272942002612 substrate binding site [chemical binding]; other site 272942002613 catalytic Zn binding site [ion binding]; other site 272942002614 NAD binding site [chemical binding]; other site 272942002615 structural Zn binding site [ion binding]; other site 272942002616 dimer interface [polypeptide binding]; other site 272942002617 Predicted esterase [General function prediction only]; Region: COG0627 272942002618 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 272942002619 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 272942002620 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 272942002621 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 272942002622 NAD(P) binding site [chemical binding]; other site 272942002623 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272942002624 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 272942002625 non-specific DNA binding site [nucleotide binding]; other site 272942002626 salt bridge; other site 272942002627 sequence-specific DNA binding site [nucleotide binding]; other site 272942002628 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 272942002629 active site 272942002630 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 272942002631 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 272942002632 active site 272942002633 putative substrate binding pocket [chemical binding]; other site 272942002634 guanine deaminase; Provisional; Region: PRK09228 272942002635 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 272942002636 active site 272942002637 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 272942002638 MgtE intracellular N domain; Region: MgtE_N; cl15244 272942002639 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 272942002640 Divalent cation transporter; Region: MgtE; cl00786 272942002641 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 272942002642 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 272942002643 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 272942002644 PhnA protein; Region: PhnA; pfam03831 272942002645 NlpC/P60 family; Region: NLPC_P60; cl11438 272942002646 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272942002647 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 272942002648 putative active site [active] 272942002649 metal binding site [ion binding]; metal-binding site 272942002650 homodimer binding site [polypeptide binding]; other site 272942002651 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; cl09110 272942002652 transmembrane helices; other site 272942002653 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; cl09110 272942002654 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; cl09110 272942002655 Domain of unknown function DUF28; Region: DUF28; cl00361 272942002656 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272942002657 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 272942002658 Walker A/P-loop; other site 272942002659 ATP binding site [chemical binding]; other site 272942002660 Q-loop/lid; other site 272942002661 ABC transporter signature motif; other site 272942002662 Walker B; other site 272942002663 D-loop; other site 272942002664 H-loop/switch region; other site 272942002665 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272942002666 FtsX-like permease family; Region: FtsX; pfam02687 272942002667 NosL; Region: NosL; cl01769 272942002668 EamA-like transporter family; Region: EamA; cl01037 272942002669 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 272942002670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942002671 Walker A/P-loop; other site 272942002672 ATP binding site [chemical binding]; other site 272942002673 Q-loop/lid; other site 272942002674 ABC transporter signature motif; other site 272942002675 Walker B; other site 272942002676 D-loop; other site 272942002677 H-loop/switch region; other site 272942002678 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...; Region: TM_PBP2; cd06261 272942002679 dimer interface [polypeptide binding]; other site 272942002680 conserved gate region; other site 272942002681 putative PBP binding loops; other site 272942002682 ABC-ATPase subunit interface; other site 272942002683 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272942002684 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 272942002685 transcriptional regulator BetI; Validated; Region: PRK00767 272942002686 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942002687 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942002688 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942002689 NAD(P) binding site [chemical binding]; other site 272942002690 catalytic residues [active] 272942002691 choline dehydrogenase; Validated; Region: PRK02106 272942002692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942002693 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 272942002694 Staphylococcal nuclease homologues; Region: SNc; smart00318 272942002695 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 272942002696 Catalytic site; other site 272942002697 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 272942002698 Protein of unknown function (DUF465); Region: DUF465; cl01070 272942002699 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 272942002700 non-specific DNA binding site [nucleotide binding]; other site 272942002701 salt bridge; other site 272942002702 sequence-specific DNA binding site [nucleotide binding]; other site 272942002703 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 272942002704 Domain of unknown function (DUF955); Region: DUF955; cl01076 272942002705 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942002706 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 272942002707 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 272942002708 putative substrate translocation pore; other site 272942002709 Protein of unknown function, DUF486; Region: DUF486; cl01236 272942002710 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 272942002711 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942002712 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942002713 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 272942002714 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942002715 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942002716 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272942002717 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 272942002718 carboxyltransferase (CT) interaction site; other site 272942002719 biotinylation site [posttranslational modification]; other site 272942002720 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily...; Region: MM_CoA_mutase_alpha_like; cd03679 272942002721 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 272942002722 active site 272942002723 substrate binding site [chemical binding]; other site 272942002724 coenzyme B12 binding site [chemical binding]; other site 272942002725 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen...; Region: MM_CoA_mut_B12_BD; cd02071 272942002726 B12 binding site [chemical binding]; other site 272942002727 cobalt ligand [ion binding]; other site 272942002728 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 272942002729 Ferritin-like domain; Region: Ferritin; pfam00210 272942002730 heme binding site [chemical binding]; other site 272942002731 ferroxidase pore; other site 272942002732 ferroxidase diiron center [ion binding]; other site 272942002733 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272942002734 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 272942002735 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272942002736 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942002737 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 272942002738 amidase catalytic site [active] 272942002739 Zn binding residues [ion binding]; other site 272942002740 substrate binding site [chemical binding]; other site 272942002741 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 272942002742 NlpC/P60 family; Region: NLPC_P60; cl11438 272942002743 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 272942002744 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 272942002745 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 272942002746 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 272942002747 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 272942002748 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 272942002749 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 272942002750 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 272942002751 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 272942002752 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 272942002753 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 272942002754 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; cl12011 272942002755 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; cl12011 272942002756 ParB-like nuclease domain; Region: ParBc; cl02129 272942002757 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942002758 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 272942002759 Phage integrase family; Region: Phage_integrase; pfam00589 272942002760 DNA binding site [nucleotide binding] 272942002761 Int/Topo IB signature motif; other site 272942002762 active site 272942002763 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 272942002764 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 272942002765 ATP binding site [chemical binding]; other site 272942002766 putative Mg++ binding site [ion binding]; other site 272942002767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942002768 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272942002769 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; cl12011 272942002770 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 272942002771 GIY-YIG motif/motif A; other site 272942002772 putative active site [active] 272942002773 putative metal binding site [ion binding]; other site 272942002774 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 272942002775 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942002776 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942002777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942002778 Walker A/P-loop; other site 272942002779 ATP binding site [chemical binding]; other site 272942002780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942002781 ABC transporter signature motif; other site 272942002782 Walker B; other site 272942002783 D-loop; other site 272942002784 H-loop/switch region; other site 272942002785 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...; Region: HNHc; cl00083 272942002786 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272942002787 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272942002788 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272942002789 Domain of unknown function (DUF303); Region: DUF303; pfam03629 272942002790 Phage-related protein, tail component [Function unknown]; Region: COG4733 272942002791 NlpC/P60 family; Region: NLPC_P60; cl11438 272942002792 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 272942002793 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 272942002794 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 272942002795 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 272942002796 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 272942002797 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 272942002798 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 272942002799 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 272942002800 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 272942002801 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 272942002802 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 272942002803 catalytic residue [active] 272942002804 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942002805 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 272942002806 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 higher-...; Region: HU_IHF; cd00591 272942002807 IHF - DNA interface [nucleotide binding]; other site 272942002808 IHF dimer interface [polypeptide binding]; other site 272942002809 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 272942002810 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 272942002811 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 272942002812 Integrase core domain; Region: rve; cl01316 272942002813 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 272942002814 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 272942002815 ParB-like nuclease domain; Region: ParBc; cl02129 272942002816 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 272942002817 Predicted transcriptional regulator [Transcription]; Region: COG2932 272942002818 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 (...; Region: S24_LexA-like; cd06529 272942002819 Catalytic site [active] 272942002820 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 272942002821 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 272942002822 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272942002823 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 272942002824 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-...; Region: CBS_pair; cl09141 272942002825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942002826 metal binding site [ion binding]; metal-binding site 272942002827 active site 272942002828 I-site; other site 272942002829 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272942002830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942002831 Walker A/P-loop; other site 272942002832 ATP binding site [chemical binding]; other site 272942002833 Q-loop/lid; other site 272942002834 ABC transporter signature motif; other site 272942002835 Walker B; other site 272942002836 D-loop; other site 272942002837 H-loop/switch region; other site 272942002838 TOBE domain; Region: TOBE_2; cl01440 272942002839 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942002840 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...; Region: TM_PBP2; cd06261 272942002841 dimer interface [polypeptide binding]; other site 272942002842 conserved gate region; other site 272942002843 putative PBP binding loops; other site 272942002844 ABC-ATPase subunit interface; other site 272942002845 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...; Region: TM_PBP2; cl00427 272942002846 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 272942002847 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272942002848 Response regulator receiver domain; Region: Response_reg; pfam00072 272942002849 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 272942002850 active site 272942002851 phosphorylation site [posttranslational modification] 272942002852 intermolecular recognition site; other site 272942002853 dimerization interface [polypeptide binding]; other site 272942002854 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942002855 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 272942002856 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 272942002857 ATP binding site [chemical binding]; other site 272942002858 Mg2+ binding site [ion binding]; other site 272942002859 G-X-G motif; other site 272942002860 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...; Region: TroA-like; cl00262 272942002861 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942002862 intersubunit interface [polypeptide binding]; other site 272942002863 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942002864 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942002865 ABC-ATPase subunit interface; other site 272942002866 putative PBP binding regions; other site 272942002867 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942002868 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 272942002869 Walker A/P-loop; other site 272942002870 ATP binding site [chemical binding]; other site 272942002871 Q-loop/lid; other site 272942002872 ABC transporter signature motif; other site 272942002873 Walker B; other site 272942002874 D-loop; other site 272942002875 H-loop/switch region; other site 272942002876 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 272942002877 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272942002878 Walker A/P-loop; other site 272942002879 ATP binding site [chemical binding]; other site 272942002880 Q-loop/lid; other site 272942002881 ABC transporter signature motif; other site 272942002882 Walker B; other site 272942002883 D-loop; other site 272942002884 H-loop/switch region; other site 272942002885 Cobalt transport protein; Region: CbiQ; cl00463 272942002886 cobalt transport protein CbiM; Provisional; Region: PRK07331 272942002887 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 272942002888 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272942002889 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942002890 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; cl11391 272942002891 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942002892 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 272942002893 Walker A/P-loop; other site 272942002894 ATP binding site [chemical binding]; other site 272942002895 Q-loop/lid; other site 272942002896 ABC transporter signature motif; other site 272942002897 Walker B; other site 272942002898 D-loop; other site 272942002899 H-loop/switch region; other site 272942002900 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272942002901 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942002902 ABC-ATPase subunit interface; other site 272942002903 dimer interface [polypeptide binding]; other site 272942002904 putative PBP binding regions; other site 272942002905 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272942002906 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...; Region: TroA-like; cl00262 272942002907 intersubunit interface [polypeptide binding]; other site 272942002908 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942002909 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 272942002910 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 272942002911 N-terminal plug; other site 272942002912 ligand-binding site [chemical binding]; other site 272942002913 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 272942002914 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 272942002915 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 272942002916 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 272942002917 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...; Region: AAA; cd00009 272942002918 Walker A motif; other site 272942002919 ATP binding site [chemical binding]; other site 272942002920 Walker B motif; other site 272942002921 arginine finger; other site 272942002922 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 272942002923 Gas vesicle protein; Region: Gas_vesicle; cl02954 272942002924 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 272942002925 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 272942002926 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 272942002927 Gas vesicle protein K; Region: GvpK; pfam05121 272942002928 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942002929 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 272942002930 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 272942002931 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 272942002932 active sites [active] 272942002933 tetramer interface [polypeptide binding]; other site 272942002934 Gas vesicle protein; Region: Gas_vesicle; cl02954 272942002935 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 272942002936 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 272942002937 putative active site [active] 272942002938 heme pocket [chemical binding]; other site 272942002939 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 272942002940 putative active site [active] 272942002941 heme pocket [chemical binding]; other site 272942002942 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942002943 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942002944 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942002945 Protein of unknown function, DUF393; Region: DUF393; cl01136 272942002946 Bacterial SH3 domain; Region: SH3_3; cl02551 272942002947 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 272942002948 putative ADP-binding pocket [chemical binding]; other site 272942002949 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 272942002950 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942002951 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272942002952 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 272942002953 putative NAD(P) binding site [chemical binding]; other site 272942002954 active site 272942002955 putative substrate binding site [chemical binding]; other site 272942002956 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272942002957 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272942002958 Probable Catalytic site [active] 272942002959 metal binding site [ion binding]; metal-binding site 272942002960 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 272942002961 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942002962 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 272942002963 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272942002964 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...; Region: LuxR_C_like; cd06170 272942002965 DNA binding residues [nucleotide binding] 272942002966 dimerization interface [polypeptide binding]; other site 272942002967 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 272942002968 peptide binding site [polypeptide binding]; other site 272942002969 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272942002970 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...; Region: TM_PBP2; cl00427 272942002971 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942002972 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...; Region: TM_PBP2; cd06261 272942002973 dimer interface [polypeptide binding]; other site 272942002974 conserved gate region; other site 272942002975 putative PBP binding loops; other site 272942002976 ABC-ATPase subunit interface; other site 272942002977 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272942002978 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 272942002979 Walker A/P-loop; other site 272942002980 ATP binding site [chemical binding]; other site 272942002981 Q-loop/lid; other site 272942002982 ABC transporter signature motif; other site 272942002983 Walker B; other site 272942002984 D-loop; other site 272942002985 H-loop/switch region; other site 272942002986 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942002987 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 272942002988 Walker A/P-loop; other site 272942002989 ATP binding site [chemical binding]; other site 272942002990 Q-loop/lid; other site 272942002991 ABC transporter signature motif; other site 272942002992 Walker B; other site 272942002993 D-loop; other site 272942002994 H-loop/switch region; other site 272942002995 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942002996 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272942002997 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...; Region: Peptidase_M17; cd00433 272942002998 interface (dimer of trimers) [polypeptide binding]; other site 272942002999 Substrate-binding/catalytic site; other site 272942003000 Zn-binding sites [ion binding]; other site 272942003001 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272942003002 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942003003 DNA-binding site [nucleotide binding]; DNA binding site 272942003004 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 272942003005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003006 homodimer interface [polypeptide binding]; other site 272942003007 catalytic residue [active] 272942003008 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 272942003009 amidohydrolase; Region: amidohydrolases; TIGR01891 272942003010 putative metal binding site [ion binding]; other site 272942003011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003012 flavoprotein, HI0933 family; Region: TIGR00275 272942003013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 272942003014 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942003015 HipA-like N-terminal domain; Region: HipA_N; pfam07805 272942003016 HipA-like C-terminal domain; Region: HipA_C; pfam07804 272942003017 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272942003018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003019 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 272942003020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003021 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942003022 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 272942003023 PAS fold; Region: PAS_4; pfam08448 272942003024 putative diguanylate cyclase; Provisional; Region: PRK09776 272942003025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942003026 metal binding site [ion binding]; metal-binding site 272942003027 active site 272942003028 I-site; other site 272942003029 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 272942003030 Hemin uptake protein hemP; Region: hemP; cl10043 272942003031 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 272942003032 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272942003033 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 272942003034 FeS/SAM binding site; other site 272942003035 TRAM domain; Region: TRAM; cl01282 272942003036 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942003037 ligand binding site [chemical binding]; other site 272942003038 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 272942003039 PhoH-like protein; Region: PhoH; cl12134 272942003040 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 272942003041 FOG: CBS domain [General function prediction only]; Region: COG0517 272942003042 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 272942003043 Transporter associated domain; Region: CorC_HlyC; cl08393 272942003044 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 272942003045 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 272942003046 putative active site [active] 272942003047 catalytic triad [active] 272942003048 putative dimer interface [polypeptide binding]; other site 272942003049 S-adenosylmethionine synthetase; Validated; Region: PRK05250 272942003050 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 272942003051 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 272942003052 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 272942003053 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; cl12011 272942003054 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 272942003055 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 272942003056 hinge; other site 272942003057 active site 272942003058 cytidylate kinase; Provisional; Region: cmk; PRK00023 272942003059 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 272942003060 CMP-binding site; other site 272942003061 The sites determining sugar specificity; other site 272942003062 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 272942003063 dimer interface [polypeptide binding]; other site 272942003064 FMN binding site [chemical binding]; other site 272942003065 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 272942003066 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 272942003067 RNA binding site [nucleotide binding]; other site 272942003068 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 272942003069 RNA binding site [nucleotide binding]; other site 272942003070 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 272942003071 RNA binding site [nucleotide binding]; other site 272942003072 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 272942003073 RNA binding site [nucleotide binding]; other site 272942003074 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 272942003075 RNA binding site [nucleotide binding]; other site 272942003076 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 272942003077 RNA binding site [nucleotide binding]; other site 272942003078 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 higher-...; Region: HU_IHF; cd00591 272942003079 IHF dimer interface [polypeptide binding]; other site 272942003080 IHF - DNA interface [nucleotide binding]; other site 272942003081 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 272942003082 active site 272942003083 tryptophan synthase, beta chain; Region: PLN02618 272942003084 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 272942003085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003086 catalytic residue [active] 272942003087 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...; Region: LuxR_C_like; cd06170 272942003088 DNA binding residues [nucleotide binding] 272942003089 dimerization interface [polypeptide binding]; other site 272942003090 Predicted transcriptional regulators [Transcription]; Region: COG1510 272942003091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003092 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 272942003093 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 272942003094 active site 272942003095 catalytic residues [active] 272942003096 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 272942003097 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272942003098 metal binding site [ion binding]; metal-binding site 272942003099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003100 metal binding site 2 [ion binding]; metal-binding site 272942003101 putative DNA binding helix; other site 272942003102 metal binding site 1 [ion binding]; metal-binding site 272942003103 dimer interface [polypeptide binding]; other site 272942003104 structural Zn2+ binding site [ion binding]; other site 272942003105 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 272942003106 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 iron-...; Region: ABC_Metallic_Cations; cd03235 272942003107 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942003108 ABC-ATPase subunit interface; other site 272942003109 dimer interface [polypeptide binding]; other site 272942003110 putative PBP binding regions; other site 272942003111 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 272942003112 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 272942003113 putative substrate binding site [chemical binding]; other site 272942003114 putative ATP binding site [chemical binding]; other site 272942003115 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 272942003116 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 272942003117 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942003118 active site 272942003119 HIGH motif; other site 272942003120 nucleotide binding site [chemical binding]; other site 272942003121 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272942003122 active site 272942003123 KMSKS motif; other site 272942003124 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 272942003125 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942003126 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 L-...; Region: GCS_H; cd06848 272942003127 lipoyl attachment site [posttranslational modification]; other site 272942003128 glycine dehydrogenase; Provisional; Region: PRK05367 272942003129 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...; Region: GDC-P; cd00613 272942003130 tetramer interface [polypeptide binding]; other site 272942003131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003132 catalytic residue [active] 272942003133 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...; Region: GDC-P; cd00613 272942003134 tetramer interface [polypeptide binding]; other site 272942003135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003136 catalytic residue [active] 272942003137 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 272942003138 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 272942003139 dimer interface [polypeptide binding]; other site 272942003140 active site 272942003141 CoA binding pocket [chemical binding]; other site 272942003142 glyoxylate reductase; Reviewed; Region: PRK13243 272942003143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003144 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 272942003145 dimer interface [polypeptide binding]; other site 272942003146 putative tRNA-binding site [nucleotide binding]; other site 272942003147 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 272942003148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003149 Family of unknown function (DUF1790); Region: DUF1790; cl02283 272942003150 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272942003151 Tetramer interface [polypeptide binding]; other site 272942003152 Active site [active] 272942003153 FMN-binding site [chemical binding]; other site 272942003154 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 272942003155 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272942003156 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 272942003157 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)-formimino-5-; Region: HisF; cd04731 272942003158 substrate binding site [chemical binding]; other site 272942003159 glutamase interaction surface [polypeptide binding]; other site 272942003160 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 272942003161 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272942003162 catalytic residues [active] 272942003163 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 272942003164 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 272942003165 Ligand Binding Site [chemical binding]; other site 272942003166 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the...; Region: cbb3_Oxidase_I; cd01661 272942003167 Low-spin heme binding site [chemical binding]; other site 272942003168 Putative water exit pathway; other site 272942003169 Binuclear center (active site) [active] 272942003170 Putative proton exit pathway; other site 272942003171 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 272942003172 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of...; Region: cbb3_Oxidase_CcoQ; cd01324 272942003173 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 272942003174 Cytochrome c; Region: Cytochrom_C; cl11414 272942003175 Cytochrome c; Region: Cytochrom_C; cl11414 272942003176 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 272942003177 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272942003178 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 alpha-; Region: HCP_like; cl14655 272942003179 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 272942003180 FixH; Region: FixH; cl01254 272942003181 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272942003182 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 272942003183 metal-binding site [ion binding] 272942003184 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942003185 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; cl11391 272942003186 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 272942003187 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 272942003188 Beta-lactamase; Region: Beta-lactamase; cl01009 272942003189 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272942003190 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; cl11391 272942003191 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 272942003192 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; cl12011 272942003193 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272942003194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003195 ATP binding site [chemical binding]; other site 272942003196 putative Mg++ binding site [ion binding]; other site 272942003197 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 272942003198 nucleotide binding region [chemical binding]; other site 272942003199 ATP-binding site [chemical binding]; other site 272942003200 DbpA RNA binding domain; Region: DbpA; pfam03880 272942003201 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 272942003202 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...; Region: URO-D; cd00717 272942003203 substrate binding site [chemical binding]; other site 272942003204 active site 272942003205 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 272942003206 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 272942003207 domain interfaces; other site 272942003208 active site 272942003209 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272942003210 FAD binding domain; Region: FAD_binding_4; pfam01565 272942003211 sugar efflux transporter; Region: 2A0120; TIGR00899 272942003212 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 272942003213 active site 272942003214 catalytic triad [active] 272942003215 oxyanion hole [active] 272942003216 switch loop; other site 272942003217 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 272942003218 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 272942003219 Walker A/P-loop; other site 272942003220 ATP binding site [chemical binding]; other site 272942003221 Q-loop/lid; other site 272942003222 ABC transporter signature motif; other site 272942003223 Walker B; other site 272942003224 D-loop; other site 272942003225 H-loop/switch region; other site 272942003226 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 272942003227 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 272942003228 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 272942003229 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942003230 catalytic residue [active] 272942003231 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 272942003232 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272942003233 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942003234 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 272942003235 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 272942003236 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 272942003237 putative active site [active] 272942003238 oxyanion strand; other site 272942003239 catalytic triad [active] 272942003240 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 272942003241 putative active site pocket [active] 272942003242 4-fold oligomerization interface [polypeptide binding]; other site 272942003243 metal binding residues [ion binding]; metal-binding site 272942003244 3-fold/trimer interface [polypeptide binding]; other site 272942003245 CsbD-like; Region: CsbD; cl01272 272942003246 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942003247 Uncharacterized conserved protein [Function unknown]; Region: COG3391 272942003248 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 272942003249 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 272942003250 Walker A/P-loop; other site 272942003251 ATP binding site [chemical binding]; other site 272942003252 Q-loop/lid; other site 272942003253 ABC transporter signature motif; other site 272942003254 Walker B; other site 272942003255 D-loop; other site 272942003256 H-loop/switch region; other site 272942003257 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 272942003258 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272942003259 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...; Region: TM_PBP2; cl00427 272942003260 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272942003261 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 272942003262 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 272942003263 trimer interface [polypeptide binding]; other site 272942003264 active site 272942003265 substrate binding site [chemical binding]; other site 272942003266 CoA binding site [chemical binding]; other site 272942003267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942003268 DNA-binding site [nucleotide binding]; DNA binding site 272942003269 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 272942003270 UTRA domain; Region: UTRA; cl01230 272942003271 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 272942003272 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 272942003273 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 272942003274 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 272942003275 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 272942003276 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 272942003277 Walker A/P-loop; other site 272942003278 ATP binding site [chemical binding]; other site 272942003279 Q-loop/lid; other site 272942003280 ABC transporter signature motif; other site 272942003281 Walker B; other site 272942003282 D-loop; other site 272942003283 H-loop/switch region; other site 272942003284 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 272942003285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003286 Walker A/P-loop; other site 272942003287 ATP binding site [chemical binding]; other site 272942003288 Q-loop/lid; other site 272942003289 ABC transporter signature motif; other site 272942003290 Walker B; other site 272942003291 D-loop; other site 272942003292 H-loop/switch region; other site 272942003293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003294 Active site [active] 272942003295 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 272942003296 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 272942003297 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 272942003298 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...; Region: metallo-dependent_hydrolases; cl00281 272942003299 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...; Region: metallo-dependent_hydrolases; cl00281 272942003300 active site 272942003301 pyruvate carboxylase; Reviewed; Region: PRK12999 272942003302 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942003303 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942003304 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272942003305 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 272942003306 active site 272942003307 catalytic residues [active] 272942003308 metal binding site [ion binding]; metal-binding site 272942003309 homodimer binding site [polypeptide binding]; other site 272942003310 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 272942003311 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 272942003312 carboxyltransferase (CT) interaction site; other site 272942003313 biotinylation site [posttranslational modification]; other site 272942003314 Sporulation related domain; Region: SPOR; cl10051 272942003315 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942003316 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 272942003317 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 272942003318 dimer interface [polypeptide binding]; other site 272942003319 motif 1; other site 272942003320 active site 272942003321 motif 2; other site 272942003322 motif 3; other site 272942003323 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 272942003324 pyruvate phosphate dikinase; Provisional; Region: PRK09279 272942003325 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272942003326 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272942003327 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 272942003328 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272942003329 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 272942003330 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 272942003331 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 272942003332 dihydropteroate synthase; Region: DHPS; TIGR01496 272942003333 substrate binding pocket [chemical binding]; other site 272942003334 dimer interface [polypeptide binding]; other site 272942003335 inhibitor binding site; inhibition site 272942003336 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 272942003337 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 UDP-N-...; Region: GlmM; cd05802 272942003338 active site 272942003339 substrate binding site [chemical binding]; other site 272942003340 metal binding site [ion binding]; metal-binding site 272942003341 ketol-acid reductoisomerase; Provisional; Region: PRK05479 272942003342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003343 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 272942003344 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942003345 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942003347 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003348 UreD urease accessory protein; Region: UreD; cl00530 272942003349 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 272942003350 alpha-gamma subunit interface [polypeptide binding]; other site 272942003351 beta-gamma subunit interface [polypeptide binding]; other site 272942003352 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...; Region: Urease_beta; cd00407 272942003353 gamma-beta subunit interface [polypeptide binding]; other site 272942003354 alpha-beta subunit interface [polypeptide binding]; other site 272942003355 urease subunit alpha; Reviewed; Region: ureC; PRK13207 272942003356 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 272942003357 subunit interactions [polypeptide binding]; other site 272942003358 active site 272942003359 flap region; other site 272942003360 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 272942003361 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 C-...; Region: UreE; cd00571 272942003362 dimer interface [polypeptide binding]; other site 272942003363 catalytic residues [active] 272942003364 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 272942003365 UreF; Region: UreF; pfam01730 272942003366 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942003367 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 272942003368 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 272942003369 putative ligand binding site [chemical binding]; other site 272942003370 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 272942003371 TM-ABC transporter signature motif; other site 272942003372 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 272942003373 TM-ABC transporter signature motif; other site 272942003374 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 272942003375 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 272942003376 Walker A/P-loop; other site 272942003377 ATP binding site [chemical binding]; other site 272942003378 Q-loop/lid; other site 272942003379 ABC transporter signature motif; other site 272942003380 Walker B; other site 272942003381 D-loop; other site 272942003382 H-loop/switch region; other site 272942003383 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 272942003384 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 272942003385 Walker A/P-loop; other site 272942003386 ATP binding site [chemical binding]; other site 272942003387 Q-loop/lid; other site 272942003388 ABC transporter signature motif; other site 272942003389 Walker B; other site 272942003390 D-loop; other site 272942003391 H-loop/switch region; other site 272942003392 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 272942003393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003394 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272942003395 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; cl11391 272942003396 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272942003397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942003398 DNA-binding site [nucleotide binding]; DNA binding site 272942003399 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 272942003400 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 272942003401 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 272942003402 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272942003403 DXD motif; other site 272942003404 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272942003405 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 272942003406 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272942003407 catalytic site [active] 272942003408 subunit interface [polypeptide binding]; other site 272942003409 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 272942003410 active site 272942003411 metal binding site [ion binding]; metal-binding site 272942003412 Cytochrome c; Region: Cytochrom_C; cl11414 272942003413 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272942003414 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 272942003415 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942003416 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942003417 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...; Region: ABC_PotA_N; cd03300 272942003418 Walker A/P-loop; other site 272942003419 ATP binding site [chemical binding]; other site 272942003420 Q-loop/lid; other site 272942003421 ABC transporter signature motif; other site 272942003422 Walker B; other site 272942003423 D-loop; other site 272942003424 H-loop/switch region; other site 272942003425 TOBE domain; Region: TOBE_2; cl01440 272942003426 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942003427 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 272942003428 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...; Region: TM_PBP2; cd06261 272942003429 dimer interface [polypeptide binding]; other site 272942003430 conserved gate region; other site 272942003431 putative PBP binding loops; other site 272942003432 ABC-ATPase subunit interface; other site 272942003433 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...; Region: TM_PBP2; cd06261 272942003434 dimer interface [polypeptide binding]; other site 272942003435 conserved gate region; other site 272942003436 putative PBP binding loops; other site 272942003437 ABC-ATPase subunit interface; other site 272942003438 Membrane transport protein; Region: Mem_trans; cl09117 272942003439 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942003440 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272942003441 active site 272942003442 DNA polymerase III subunit delta'; Validated; Region: PRK07471 272942003443 thymidylate kinase; Validated; Region: tmk; PRK00698 272942003444 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...; Region: TMPK; cd01672 272942003445 TMP-binding site; other site 272942003446 ATP-binding site [chemical binding]; other site 272942003447 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 272942003448 Beta-lactamase; Region: Beta-lactamase; cl01009 272942003449 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272942003450 Sporulation related domain; Region: SPOR; cl10051 272942003451 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 272942003452 Int/Topo IB signature motif; other site 272942003453 active site 272942003454 DNA binding site [nucleotide binding] 272942003455 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; cl12011 272942003456 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; cl12011 272942003457 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 272942003458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003459 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272942003460 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 272942003461 catalytic residues [active] 272942003462 catalytic nucleophile [active] 272942003463 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272942003464 RT_Bac_retron_I: 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_I; cd01646 272942003465 putative active site [active] 272942003466 putative NTP binding site [chemical binding]; other site 272942003467 putative nucleic acid binding site [nucleotide binding]; other site 272942003468 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 272942003469 non-specific DNA binding site [nucleotide binding]; other site 272942003470 salt bridge; other site 272942003471 sequence-specific DNA binding site [nucleotide binding]; other site 272942003472 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 272942003473 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 272942003474 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 272942003475 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 272942003476 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 272942003477 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 272942003478 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 272942003479 putative active site [active] 272942003480 putative NTP binding site [chemical binding]; other site 272942003481 putative nucleic acid binding site [nucleotide binding]; other site 272942003482 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 272942003483 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 272942003484 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons...; Region: RT_like; cl02808 272942003485 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 272942003486 putative metal binding site [ion binding]; other site 272942003487 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 272942003488 active site 272942003489 catalytic site [active] 272942003490 substrate binding site [chemical binding]; other site 272942003491 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 272942003492 Predicted transcriptional regulator [Transcription]; Region: COG2378 272942003493 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 272942003494 Uncharacterized conserved protein [Function unknown]; Region: COG4127 272942003495 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 272942003496 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 272942003497 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272942003498 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 272942003499 UvrD/REP helicase; Region: UvrD-helicase; cl14126 272942003500 UvrD/REP helicase; Region: UvrD-helicase; cl14126 272942003501 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 272942003502 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272942003503 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272942003504 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 272942003505 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942003506 ligand binding site [chemical binding]; other site 272942003507 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 272942003508 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 272942003509 ATP binding site [chemical binding]; other site 272942003510 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 272942003511 nucleotide binding region [chemical binding]; other site 272942003512 ATP-binding site [chemical binding]; other site 272942003513 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 272942003514 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 272942003515 nucleotide binding region [chemical binding]; other site 272942003516 ATP-binding site [chemical binding]; other site 272942003517 Predicted transcriptional regulator [Transcription]; Region: COG2378 272942003518 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 272942003519 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 272942003520 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003521 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 272942003522 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 272942003523 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 272942003524 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 272942003525 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 272942003526 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272942003527 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 272942003528 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 272942003529 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 272942003530 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 272942003531 Protein of unknown function DUF262; Region: DUF262; cl14890 272942003532 Uncharacterized conserved protein [Function unknown]; Region: COG4938 272942003533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003534 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 272942003535 Pirin-related protein [General function prediction only]; Region: COG1741 272942003536 Cupin domain; Region: Cupin_2; cl09118 272942003537 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272942003538 Predicted membrane protein [Function unknown]; Region: COG3174 272942003539 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942003540 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942003541 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 272942003542 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 272942003543 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 272942003544 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 272942003545 ATP binding site [chemical binding]; other site 272942003546 putative Mg++ binding site [ion binding]; other site 272942003547 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 272942003548 HsdM N-terminal domain; Region: HsdM_N; pfam12161 272942003549 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272942003550 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; cl12011 272942003551 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 272942003552 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942003553 Uncharacterized conserved protein [Function unknown]; Region: COG4938 272942003554 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 272942003555 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; cl01116 272942003556 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 272942003557 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...; Region: AAA; cd00009 272942003558 Walker A motif; other site 272942003559 ATP binding site [chemical binding]; other site 272942003560 arginine finger; other site 272942003561 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942003562 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 272942003563 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 272942003564 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 272942003565 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 272942003566 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; cl01902 272942003567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003568 D-serine deaminase transcriptional activator; Region: dsdC; TIGR02036 272942003569 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 272942003570 EamA-like transporter family; Region: EamA; cl01037 272942003571 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 272942003572 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942003573 putative ligand binding residues [chemical binding]; other site 272942003574 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942003575 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 272942003576 Pirin-related protein [General function prediction only]; Region: COG1741 272942003577 Cupin domain; Region: Cupin_2; cl09118 272942003578 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272942003579 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 272942003580 active site 272942003581 substrate binding site [chemical binding]; other site 272942003582 catalytic site [active] 272942003583 Pirin-related protein [General function prediction only]; Region: COG1741 272942003584 Cupin domain; Region: Cupin_2; cl09118 272942003585 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272942003586 Response regulator receiver domain; Region: Response_reg; pfam00072 272942003587 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 272942003588 active site 272942003589 phosphorylation site [posttranslational modification] 272942003590 intermolecular recognition site; other site 272942003591 dimerization interface [polypeptide binding]; other site 272942003592 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272942003593 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 272942003594 putative binding surface; other site 272942003595 active site 272942003596 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272942003597 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 272942003598 ATP binding site [chemical binding]; other site 272942003599 Mg2+ binding site [ion binding]; other site 272942003600 G-X-G motif; other site 272942003601 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 272942003602 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 272942003603 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272942003604 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 272942003605 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942003606 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942003607 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 272942003608 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 272942003609 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; cl12011 272942003610 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272942003611 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 272942003612 active site 272942003613 phosphorylation site [posttranslational modification] 272942003614 intermolecular recognition site; other site 272942003615 dimerization interface [polypeptide binding]; other site 272942003616 CheB methylesterase; Region: CheB_methylest; pfam01339 272942003617 FecR protein; Region: FecR; pfam04773 272942003618 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 272942003619 CHASE2 domain; Region: CHASE2; cl01732 272942003620 cyclase homology domain; Region: CHD; cd07302 272942003621 nucleotidyl binding site; other site 272942003622 metal binding site [ion binding]; metal-binding site 272942003623 dimer interface [polypeptide binding]; other site 272942003624 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 272942003625 ligand binding site [chemical binding]; other site 272942003626 flexible hinge region; other site 272942003627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003628 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942003629 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942003630 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942003631 2-isopropylmalate synthase; Validated; Region: PRK00915 272942003632 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 272942003633 active site 272942003634 catalytic residues [active] 272942003635 metal binding site [ion binding]; metal-binding site 272942003636 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 272942003637 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 trans-...; Region: HisKA; cd00082 272942003638 dimer interface [polypeptide binding]; other site 272942003639 phosphorylation site [posttranslational modification] 272942003640 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 272942003641 ATP binding site [chemical binding]; other site 272942003642 Mg2+ binding site [ion binding]; other site 272942003643 G-X-G motif; other site 272942003644 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 272942003645 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 272942003646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 272942003647 NAD synthetase; Provisional; Region: PRK13981 272942003648 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 272942003649 multimer interface [polypeptide binding]; other site 272942003650 active site 272942003651 catalytic triad [active] 272942003652 protein interface 1 [polypeptide binding]; other site 272942003653 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...; Region: NAD_synthase; cd00553 272942003654 homodimer interface [polypeptide binding]; other site 272942003655 NAD binding pocket [chemical binding]; other site 272942003656 ATP binding pocket [chemical binding]; other site 272942003657 Mg binding site [ion binding]; other site 272942003658 active-site loop [active] 272942003659 Transposase IS200 like; Region: Y1_Tnp; cl00848 272942003660 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272942003661 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 272942003662 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942003663 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...; Region: TM_PBP2; cl00427 272942003664 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...; Region: TM_PBP2; cl00427 272942003665 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942003666 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942003667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003668 Walker A/P-loop; other site 272942003669 ATP binding site [chemical binding]; other site 272942003670 Q-loop/lid; other site 272942003671 ABC transporter signature motif; other site 272942003672 Walker B; other site 272942003673 D-loop; other site 272942003674 H-loop/switch region; other site 272942003675 TOBE domain; Region: TOBE_2; cl01440 272942003676 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272942003677 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...; Region: SIS_RpiR; cd05013 272942003678 putative active site [active] 272942003679 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272942003680 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; cl09110 272942003681 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 272942003682 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942003683 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272942003684 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942003685 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942003686 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 272942003687 NAD(P) binding site [chemical binding]; other site 272942003688 catalytic residues [active] 272942003689 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272942003690 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 272942003691 putative active site [active] 272942003692 metal binding site [ion binding]; metal-binding site 272942003693 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 272942003694 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942003695 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942003696 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 272942003697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003698 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272942003699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003700 excinuclease ABC subunit B; Provisional; Region: PRK05298 272942003701 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 272942003702 ATP binding site [chemical binding]; other site 272942003703 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 272942003704 nucleotide binding region [chemical binding]; other site 272942003705 ATP-binding site [chemical binding]; other site 272942003706 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272942003707 UvrB/uvrC motif; Region: UVR; pfam02151 272942003708 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 272942003709 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272942003710 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...; Region: SIS_RpiR; cd05013 272942003711 putative active site [active] 272942003712 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 272942003713 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942003714 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942003715 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003716 Walker A/P-loop; other site 272942003717 ATP binding site [chemical binding]; other site 272942003718 Q-loop/lid; other site 272942003719 ABC transporter signature motif; other site 272942003720 Walker B; other site 272942003721 D-loop; other site 272942003722 H-loop/switch region; other site 272942003723 TOBE domain; Region: TOBE_2; cl01440 272942003724 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942003725 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...; Region: TM_PBP2; cd06261 272942003726 putative PBP binding loops; other site 272942003727 ABC-ATPase subunit interface; other site 272942003728 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...; Region: TM_PBP2; cd06261 272942003729 dimer interface [polypeptide binding]; other site 272942003730 conserved gate region; other site 272942003731 putative PBP binding loops; other site 272942003732 ABC-ATPase subunit interface; other site 272942003733 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 272942003734 homodimer interface [polypeptide binding]; other site 272942003735 homotetramer interface [polypeptide binding]; other site 272942003736 active site pocket [active] 272942003737 cleavage site 272942003738 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 272942003739 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 272942003740 active site 272942003741 phosphorylation site [posttranslational modification] 272942003742 intermolecular recognition site; other site 272942003743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003744 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 272942003745 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272942003746 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272942003747 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272942003748 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272942003749 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cd00216 272942003750 Trp docking motif; other site 272942003751 'Velcro' closure; other site 272942003752 active site 272942003753 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942003754 Predicted secreted protein [Function unknown]; Region: COG5501; cl02313 272942003755 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 272942003756 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 272942003757 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272942003758 Histidine kinase; Region: HisKA_3; pfam07730 272942003759 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 272942003760 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 272942003761 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 272942003762 conserved cys residue [active] 272942003763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942003764 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272942003765 NMT1/THI5 like; Region: NMT1; pfam09084 272942003766 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...; Region: TM_PBP2; cl00427 272942003767 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942003768 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942003769 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 272942003770 Walker A/P-loop; other site 272942003771 ATP binding site [chemical binding]; other site 272942003772 Q-loop/lid; other site 272942003773 ABC transporter signature motif; other site 272942003774 Walker B; other site 272942003775 D-loop; other site 272942003776 H-loop/switch region; other site 272942003777 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 272942003778 catalytic residue [active] 272942003779 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 272942003780 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 272942003781 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 272942003782 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272942003783 active site 272942003784 ATP binding site [chemical binding]; other site 272942003785 substrate binding site [chemical binding]; other site 272942003786 activation loop (A-loop); other site 272942003787 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 272942003788 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 272942003789 tandem repeat interface [polypeptide binding]; other site 272942003790 oligomer interface [polypeptide binding]; other site 272942003791 active site residues [active] 272942003792 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272942003793 Hemin uptake protein hemP; Region: hemP; cl10043 272942003794 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 272942003795 diiron binding motif [ion binding]; other site 272942003796 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942003797 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942003798 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003799 Walker A/P-loop; other site 272942003800 ATP binding site [chemical binding]; other site 272942003801 Q-loop/lid; other site 272942003802 ABC transporter signature motif; other site 272942003803 Walker B; other site 272942003804 D-loop; other site 272942003805 H-loop/switch region; other site 272942003806 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003807 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272942003808 Walker A/P-loop; other site 272942003809 ATP binding site [chemical binding]; other site 272942003810 Q-loop/lid; other site 272942003811 ABC transporter signature motif; other site 272942003812 Walker B; other site 272942003813 D-loop; other site 272942003814 H-loop/switch region; other site 272942003815 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272942003816 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 272942003817 N-terminal plug; other site 272942003818 ligand-binding site [chemical binding]; other site 272942003819 Leucine carboxyl methyltransferase; Region: LCM; cl01306 272942003820 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942003821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942003822 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942003823 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942003824 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 272942003825 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 272942003826 N-terminal plug; other site 272942003827 ligand-binding site [chemical binding]; other site 272942003828 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...; Region: FhuD; cd01146 272942003829 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942003830 siderophore binding site; other site 272942003831 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942003832 putative PBP binding regions; other site 272942003833 ABC-ATPase subunit interface; other site 272942003834 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942003835 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942003836 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 272942003837 Walker A/P-loop; other site 272942003838 ATP binding site [chemical binding]; other site 272942003839 Q-loop/lid; other site 272942003840 ABC transporter signature motif; other site 272942003841 Walker B; other site 272942003842 D-loop; other site 272942003843 H-loop/switch region; other site 272942003844 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 272942003845 FAD binding pocket [chemical binding]; other site 272942003846 FAD binding motif [chemical binding]; other site 272942003847 phosphate binding motif [ion binding]; other site 272942003848 NAD binding pocket [chemical binding]; other site 272942003849 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942003850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003851 Walker A/P-loop; other site 272942003852 ATP binding site [chemical binding]; other site 272942003853 Q-loop/lid; other site 272942003854 ABC transporter signature motif; other site 272942003855 Walker B; other site 272942003856 D-loop; other site 272942003857 H-loop/switch region; other site 272942003858 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942003859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003860 Walker A/P-loop; other site 272942003861 ATP binding site [chemical binding]; other site 272942003862 Q-loop/lid; other site 272942003863 ABC transporter signature motif; other site 272942003864 Walker B; other site 272942003865 D-loop; other site 272942003866 H-loop/switch region; other site 272942003867 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942003868 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 272942003869 Walker A/P-loop; other site 272942003870 ATP binding site [chemical binding]; other site 272942003871 Q-loop/lid; other site 272942003872 ABC transporter signature motif; other site 272942003873 Walker B; other site 272942003874 D-loop; other site 272942003875 H-loop/switch region; other site 272942003876 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942003877 ABC-ATPase subunit interface; other site 272942003878 dimer interface [polypeptide binding]; other site 272942003879 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942003880 ABC-ATPase subunit interface; other site 272942003881 dimer interface [polypeptide binding]; other site 272942003882 putative PBP binding regions; other site 272942003883 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 272942003884 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...; Region: TroA-like; cl00262 272942003885 intersubunit interface [polypeptide binding]; other site 272942003886 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 272942003887 N-terminal plug; other site 272942003888 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272942003889 ligand-binding site [chemical binding]; other site 272942003890 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 272942003891 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 272942003892 metal binding site [ion binding]; metal-binding site 272942003893 putative dimer interface [polypeptide binding]; other site 272942003894 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272942003895 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), 8-amino-7-...; Region: KBL_like; cd06454 272942003896 substrate-cofactor binding pocket; other site 272942003897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003898 catalytic residue [active] 272942003899 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 272942003900 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942003901 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 272942003902 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 272942003903 seryl-tRNA synthetase; Provisional; Region: PRK05431 272942003904 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...; Region: SerRS_core; cd00770 272942003905 dimer interface [polypeptide binding]; other site 272942003906 active site 272942003907 motif 1; other site 272942003908 motif 2; other site 272942003909 motif 3; other site 272942003910 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942003911 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272942003912 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 272942003913 dimerization interface [polypeptide binding]; other site 272942003914 putative DNA binding site [nucleotide binding]; other site 272942003915 putative Zn2+ binding site [ion binding]; other site 272942003916 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 272942003917 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 272942003918 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 272942003919 catalytic motif [active] 272942003920 Catalytic residue [active] 272942003921 MarC family integral membrane protein; Region: MarC; cl00919 272942003922 Predicted transcriptional regulator [Transcription]; Region: COG2378 272942003923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003924 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272942003925 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272942003926 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 272942003927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942003928 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 272942003929 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 272942003930 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272942003931 Domain of unknown function DUF28; Region: DUF28; cl00361 272942003932 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272942003933 active site 272942003934 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272942003935 TSCPD domain; Region: TSCPD; cl14834 272942003936 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 272942003937 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 272942003938 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 272942003939 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...; Region: GltS_FMN; cd02808 272942003940 active site 272942003941 FMN binding site [chemical binding]; other site 272942003942 substrate binding site [chemical binding]; other site 272942003943 3Fe-4S cluster binding site [ion binding]; other site 272942003944 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942003945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942003946 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 272942003947 dimerization interface [polypeptide binding]; other site 272942003948 substrate binding pocket [chemical binding]; other site 272942003949 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942003950 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942003951 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 272942003952 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942003953 tetrameric interface [polypeptide binding]; other site 272942003954 NAD binding site [chemical binding]; other site 272942003955 catalytic residues [active] 272942003956 hypothetical protein; Validated; Region: PRK07682 272942003957 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 272942003958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942003959 homodimer interface [polypeptide binding]; other site 272942003960 catalytic residue [active] 272942003961 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 272942003962 trimer interface [polypeptide binding]; other site 272942003963 active site 272942003964 dimer interface [polypeptide binding]; other site 272942003965 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 272942003966 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 272942003967 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942003968 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 272942003969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942003970 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 272942003971 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_6; cd06154 272942003972 homotrimer interaction site [polypeptide binding]; other site 272942003973 putative active site [active] 272942003974 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942003975 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942003976 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942003977 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 272942003978 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 272942003979 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 272942003980 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 272942003981 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942003982 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942003983 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942003984 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 272942003985 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272942003986 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942003987 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 272942003988 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 272942003989 Mg++ binding site [ion binding]; other site 272942003990 putative catalytic motif [active] 272942003991 putative substrate binding site [chemical binding]; other site 272942003992 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 272942003993 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272942003994 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942003995 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 272942003996 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 272942003997 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...; Region: PurM; cd02196 272942003998 dimerization interface [polypeptide binding]; other site 272942003999 putative ATP binding site [chemical binding]; other site 272942004000 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 272942004001 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 272942004002 active site 272942004003 substrate binding site [chemical binding]; other site 272942004004 cosubstrate binding site; other site 272942004005 catalytic site [active] 272942004006 ribonuclease D; Region: rnd; TIGR01388 272942004007 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 272942004008 putative active site [active] 272942004009 catalytic site [active] 272942004010 putative substrate binding site [chemical binding]; other site 272942004011 HRDC domain; Region: HRDC; cl02578 272942004012 UvrD/REP helicase; Region: UvrD-helicase; cl14126 272942004013 UvrD/REP helicase; Region: UvrD-helicase; cl14126 272942004014 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 272942004015 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 272942004016 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 272942004017 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 272942004018 homodimer interface [polypeptide binding]; other site 272942004019 substrate-cofactor binding pocket; other site 272942004020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942004021 catalytic residue [active] 272942004022 elongation factor G; Reviewed; Region: PRK12740 272942004023 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942004024 Switch I region; other site 272942004025 G3 box; other site 272942004026 Switch II region; other site 272942004027 GTP/Mg2+ binding site [chemical binding]; other site 272942004028 G4 box; other site 272942004029 G5 box; other site 272942004030 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...; Region: EFG_mtEFG1_IV; cd01434 272942004031 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...; Region: EFG_mtEFG_C; cd03713 272942004032 Fe-S metabolism associated domain; Region: SufE; cl00951 272942004033 Peptidase C26; Region: Peptidase_C26; pfam07722 272942004034 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 272942004035 catalytic triad [active] 272942004036 A new structural DNA glycosylase; Region: AlkD_like; cd06561 272942004037 Active site [active] 272942004038 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 272942004039 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...; Region: GFAT; cd00714 272942004040 glutaminase active site [active] 272942004041 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 272942004042 dimer interface [polypeptide binding]; other site 272942004043 active site 272942004044 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 272942004045 dimer interface [polypeptide binding]; other site 272942004046 active site 272942004047 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 272942004048 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 272942004049 Substrate binding site [chemical binding]; other site 272942004050 Mg++ binding site [ion binding]; other site 272942004051 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 272942004052 active site 272942004053 substrate binding site [chemical binding]; other site 272942004054 CoA binding site [chemical binding]; other site 272942004055 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942004056 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 272942004057 motif II; other site 272942004058 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 272942004059 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 272942004060 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 272942004061 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942004062 catalytic residue [active] 272942004063 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272942004064 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 272942004065 putative active site [active] 272942004066 heme pocket [chemical binding]; other site 272942004067 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 trans-...; Region: HisKA; cl00080 272942004068 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 272942004069 ATP binding site [chemical binding]; other site 272942004070 Mg2+ binding site [ion binding]; other site 272942004071 G-X-G motif; other site 272942004072 Response regulator receiver domain; Region: Response_reg; pfam00072 272942004073 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 272942004074 active site 272942004075 phosphorylation site [posttranslational modification] 272942004076 intermolecular recognition site; other site 272942004077 dimerization interface [polypeptide binding]; other site 272942004078 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 272942004079 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272942004080 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 272942004081 active site 272942004082 phosphorylation site [posttranslational modification] 272942004083 intermolecular recognition site; other site 272942004084 dimerization interface [polypeptide binding]; other site 272942004085 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...; Region: LuxR_C_like; cd06170 272942004086 DNA binding residues [nucleotide binding] 272942004087 dimerization interface [polypeptide binding]; other site 272942004088 isovaleryl-CoA dehydrogenase; Region: PLN02519 272942004089 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942004090 active site 272942004091 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 272942004092 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 272942004093 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942004094 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942004095 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 272942004096 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942004097 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942004098 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272942004099 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 272942004100 carboxyltransferase (CT) interaction site; other site 272942004101 biotinylation site [posttranslational modification]; other site 272942004102 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...; Region: GST_N_GTT1_like; cd03046 272942004103 putative C-terminal domain interface [polypeptide binding]; other site 272942004104 putative GSH binding site (G-site) [chemical binding]; other site 272942004105 putative dimer interface [polypeptide binding]; other site 272942004106 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272942004107 N-terminal domain interface [polypeptide binding]; other site 272942004108 dimer interface [polypeptide binding]; other site 272942004109 substrate binding pocket (H-site) [chemical binding]; other site 272942004110 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 272942004111 active site 272942004112 catalytic residues [active] 272942004113 metal binding site [ion binding]; metal-binding site 272942004114 enoyl-CoA hydratase; Provisional; Region: PRK07468 272942004115 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 272942004116 substrate binding site [chemical binding]; other site 272942004117 oxyanion hole (OAH) forming residues; other site 272942004118 trimer interface [polypeptide binding]; other site 272942004119 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 272942004120 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 272942004121 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 272942004122 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 272942004123 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 272942004124 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...; Region: TRX_Fd_NuoE; cd03064 272942004125 putative dimer interface [polypeptide binding]; other site 272942004126 [2Fe-2S] cluster binding site [ion binding]; other site 272942004127 Uncharacterized conserved protein [Function unknown]; Region: COG3743 272942004128 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 272942004129 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272942004130 SLBB domain; Region: SLBB; pfam10531 272942004131 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 272942004132 Ferredoxin; Provisional; Region: PLN03136 272942004133 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; cl12011 272942004134 NADH dehydrogenase subunit G; Validated; Region: PRK09130 272942004135 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 272942004136 catalytic loop [active] 272942004137 iron binding site [ion binding]; other site 272942004138 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 272942004139 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 272942004140 molybdopterin cofactor binding site; other site 272942004141 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 272942004142 NADH dehydrogenase; Region: NADHdh; cl00469 272942004143 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 272942004144 4Fe-4S binding domain; Region: Fer4; cl02805 272942004145 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 272942004146 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 272942004147 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 272942004148 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 272942004149 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 272942004150 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 272942004151 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272942004152 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 272942004153 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 272942004154 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272942004155 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 272942004156 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272942004157 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272942004158 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272942004159 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 272942004160 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272942004161 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942004162 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 272942004163 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 272942004164 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 272942004165 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 272942004166 putative valine binding site [chemical binding]; other site 272942004167 dimer interface [polypeptide binding]; other site 272942004168 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 272942004169 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 272942004170 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272942004171 PYR/PP interface [polypeptide binding]; other site 272942004172 dimer interface [polypeptide binding]; other site 272942004173 TPP binding site [chemical binding]; other site 272942004174 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 272942004175 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 272942004176 TPP-binding site [chemical binding]; other site 272942004177 dimer interface [polypeptide binding]; other site 272942004178 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272942004179 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; cl09110 272942004180 DctM-like transporters; Region: DctM; pfam06808 272942004181 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; cl09110 272942004182 putative acyl-CoA synthetase; Provisional; Region: PRK06018 272942004183 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942004184 peptide chain release factor 2; Validated; Region: prfB; PRK00578 272942004185 RF-1 domain; Region: RF-1; cl02875 272942004186 RF-1 domain; Region: RF-1; cl02875 272942004187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942004188 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 272942004189 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 272942004190 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942004191 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...; Region: PRX_BCP; cd03017 272942004192 catalytic triad [active] 272942004193 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 272942004194 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272942004195 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 272942004196 putative substrate translocation pore; other site 272942004197 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 272942004198 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 272942004199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004201 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272942004202 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 272942004203 active site residue [active] 272942004204 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272942004205 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 272942004206 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 272942004207 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 272942004208 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; cl12011 272942004209 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 272942004210 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 272942004211 ligand binding site [chemical binding]; other site 272942004212 flexible hinge region; other site 272942004213 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942004214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004215 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 272942004216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004217 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 272942004218 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 272942004219 substrate binding site [chemical binding]; other site 272942004220 oxyanion hole (OAH) forming residues; other site 272942004221 trimer interface [polypeptide binding]; other site 272942004222 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942004223 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942004224 active site 272942004225 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 272942004226 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942004227 tetrameric interface [polypeptide binding]; other site 272942004228 NAD binding site [chemical binding]; other site 272942004229 catalytic residues [active] 272942004230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942004231 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942004232 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 272942004233 dimerization interface [polypeptide binding]; other site 272942004234 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 272942004235 active site 272942004236 (T/H)XGH motif; other site 272942004237 amidophosphoribosyltransferase; Provisional; Region: PRK09123 272942004238 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 272942004239 active site 272942004240 tetramer interface [polypeptide binding]; other site 272942004241 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942004242 Colicin V production protein; Region: Colicin_V; cl00567 272942004243 DNA repair protein RadA; Provisional; Region: PRK11823 272942004244 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 272942004245 Walker A motif/ATP binding site; other site 272942004246 ATP binding site [chemical binding]; other site 272942004247 Walker B motif; other site 272942004248 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 272942004249 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 272942004250 Walker A/P-loop; other site 272942004251 ATP binding site [chemical binding]; other site 272942004252 Q-loop/lid; other site 272942004253 ABC transporter signature motif; other site 272942004254 Walker B; other site 272942004255 D-loop; other site 272942004256 H-loop/switch region; other site 272942004257 Domain of unknown function DUF140; Region: DUF140; cl00510 272942004258 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 272942004259 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 272942004260 active site 272942004261 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942004262 dimer interface [polypeptide binding]; other site 272942004263 substrate binding site [chemical binding]; other site 272942004264 catalytic residues [active] 272942004265 replicative DNA helicase; Provisional; Region: PRK09165 272942004266 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272942004267 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 272942004268 Walker A motif; other site 272942004269 ATP binding site [chemical binding]; other site 272942004270 Walker B motif; other site 272942004271 DNA binding loops [nucleotide binding] 272942004272 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942004273 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 272942004274 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 272942004275 active site 272942004276 substrate binding pocket [chemical binding]; other site 272942004277 dimer interface [polypeptide binding]; other site 272942004278 UreE urease accessory protein, C-terminal domain; Region: UreE_C; pfam05194 272942004279 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 272942004280 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 272942004281 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism]; Region: COG4421 272942004282 GSCFA family; Region: GSCFA; pfam08885 272942004283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942004284 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942004285 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272942004286 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272942004287 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272942004288 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 272942004289 FAD binding pocket [chemical binding]; other site 272942004290 FAD binding motif [chemical binding]; other site 272942004291 phosphate binding motif [ion binding]; other site 272942004292 beta-alpha-beta structure motif; other site 272942004293 NAD binding pocket [chemical binding]; other site 272942004294 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 272942004295 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 272942004296 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 272942004297 Active Sites [active] 272942004298 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 272942004299 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272942004300 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272942004301 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 272942004302 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942004303 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942004304 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942004305 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 272942004306 substrate binding site [chemical binding]; other site 272942004307 dimer interface [polypeptide binding]; other site 272942004308 catalytic triad [active] 272942004309 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272942004310 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 272942004311 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 272942004312 FMN binding site [chemical binding]; other site 272942004313 active site 272942004314 substrate binding site [chemical binding]; other site 272942004315 catalytic residue [active] 272942004316 Domain of unknown function DUF59; Region: DUF59; cl00941 272942004317 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 272942004318 Haemolysin-III related; Region: HlyIII; cl03831 272942004319 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942004320 Active site [active] 272942004321 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- (beta-...; Region: TMP_TenI; cd00564 272942004322 thiamine phosphate binding site [chemical binding]; other site 272942004323 active site 272942004324 pyrophosphate binding site [ion binding]; other site 272942004325 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 272942004326 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272942004327 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 272942004328 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 272942004329 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 272942004330 active site 272942004331 Zn binding site [ion binding]; other site 272942004332 Peptidase family M48; Region: Peptidase_M48; cl12018 272942004333 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 272942004334 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 272942004335 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 272942004336 Pterin binding enzyme; Region: Pterin_bind; pfam00809 272942004337 substrate binding pocket [chemical binding]; other site 272942004338 dimer interface [polypeptide binding]; other site 272942004339 inhibitor binding site; inhibition site 272942004340 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...; Region: MTHFR; cl00246 272942004341 FAD binding site [chemical binding]; other site 272942004342 exopolyphosphatase; Region: exo_poly_only; TIGR03706 272942004343 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 272942004344 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; cl12011 272942004345 GAF domain; Region: GAF; cl00853 272942004346 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942004347 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942004348 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942004349 NAD(P) binding site [chemical binding]; other site 272942004350 catalytic residues [active] 272942004351 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942004352 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942004353 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942004354 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 272942004355 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942004356 IPP transferase; Region: IPPT; cl00403 272942004357 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 272942004358 putative nucleotide binding site [chemical binding]; other site 272942004359 uridine monophosphate binding site [chemical binding]; other site 272942004360 homohexameric interface [polypeptide binding]; other site 272942004361 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 272942004362 hinge region; other site 272942004363 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 272942004364 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; cl00230 272942004365 catalytic residue [active] 272942004366 putative FPP diphosphate binding site; other site 272942004367 putative FPP binding hydrophobic cleft; other site 272942004368 dimer interface [polypeptide binding]; other site 272942004369 putative IPP diphosphate binding site; other site 272942004370 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 272942004371 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272942004372 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272942004373 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272942004374 RIP metalloprotease RseP; Region: TIGR00054 272942004375 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 272942004376 active site 272942004377 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...; Region: PDZ_metalloprotease; cd00989 272942004378 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 272942004379 putative substrate binding region [chemical binding]; other site 272942004380 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 272942004381 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 272942004382 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272942004383 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272942004384 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272942004385 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272942004386 Surface antigen; Region: Bac_surface_Ag; cl03097 272942004387 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 272942004388 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 272942004389 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 272942004390 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 272942004391 active site 272942004392 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 272942004393 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 272942004394 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 272942004395 LamB/YcsF family; Region: LamB_YcsF; cl00664 272942004396 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 272942004397 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 272942004398 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 272942004399 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 272942004400 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272942004401 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272942004402 Uncharacterized conserved protein [Function unknown]; Region: COG2308 272942004403 Domain of unknown function (DUF404); Region: DUF404; pfam04169 272942004404 Domain of unknown function (DUF407); Region: DUF407; pfam04174 272942004405 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 272942004406 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272942004407 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272942004408 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272942004409 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 272942004410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 272942004411 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 272942004412 FMN-binding domain; Region: FMN_bind; cl01081 272942004413 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 272942004414 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272942004415 ApbE family; Region: ApbE; cl00643 272942004416 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...; Region: PBPb; cl15306 272942004417 substrate binding pocket [chemical binding]; other site 272942004418 membrane-bound complex binding site; other site 272942004419 hinge residues; other site 272942004420 Cytochrome c; Region: Cytochrom_C; cl11414 272942004421 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...; Region: PBPb; cl15306 272942004422 membrane-bound complex binding site; other site 272942004423 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...; Region: TM_PBP2; cd06261 272942004424 dimer interface [polypeptide binding]; other site 272942004425 conserved gate region; other site 272942004426 putative PBP binding loops; other site 272942004427 ABC-ATPase subunit interface; other site 272942004428 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 272942004429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942004430 Walker A/P-loop; other site 272942004431 ATP binding site [chemical binding]; other site 272942004432 Q-loop/lid; other site 272942004433 ABC transporter signature motif; other site 272942004434 Walker B; other site 272942004435 D-loop; other site 272942004436 H-loop/switch region; other site 272942004437 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272942004438 PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 272942004439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942004440 Walker A/P-loop; other site 272942004441 ATP binding site [chemical binding]; other site 272942004442 Q-loop/lid; other site 272942004443 ABC transporter signature motif; other site 272942004444 Walker B; other site 272942004445 D-loop; other site 272942004446 H-loop/switch region; other site 272942004447 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272942004448 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...; Region: WD40; cl02567 272942004449 structural tetrad; other site 272942004450 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272942004451 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 272942004452 ligand binding site [chemical binding]; other site 272942004453 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272942004454 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272942004455 Cytochrome c; Region: Cytochrom_C; cl11414 272942004456 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272942004457 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 272942004458 Trp docking motif; other site 272942004459 'Velcro' closure; other site 272942004460 active site 272942004461 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272942004462 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 272942004463 active site 272942004464 phosphorylation site [posttranslational modification] 272942004465 intermolecular recognition site; other site 272942004466 dimerization interface [polypeptide binding]; other site 272942004467 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...; Region: LuxR_C_like; cd06170 272942004468 DNA binding residues [nucleotide binding] 272942004469 dimerization interface [polypeptide binding]; other site 272942004470 FIST N domain; Region: FIST; cl10701 272942004471 FIST C domain; Region: FIST_C; pfam10442 272942004472 PAS fold; Region: PAS_7; pfam12860 272942004473 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272942004474 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 trans-...; Region: HisKA; cl00080 272942004475 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 272942004476 ATP binding site [chemical binding]; other site 272942004477 Mg2+ binding site [ion binding]; other site 272942004478 G-X-G motif; other site 272942004479 Response regulator receiver domain; Region: Response_reg; pfam00072 272942004480 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 272942004481 active site 272942004482 phosphorylation site [posttranslational modification] 272942004483 intermolecular recognition site; other site 272942004484 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 272942004485 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 272942004486 Ligand Binding Site [chemical binding]; other site 272942004487 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 272942004488 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942004489 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 272942004490 active site 272942004491 phosphorylation site [posttranslational modification] 272942004492 intermolecular recognition site; other site 272942004493 dimerization interface [polypeptide binding]; other site 272942004494 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...; Region: trans_reg_C; cd00383 272942004495 DNA binding site [nucleotide binding] 272942004496 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272942004497 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 272942004498 nucleotide binding pocket [chemical binding]; other site 272942004499 K-X-D-G motif; other site 272942004500 catalytic site [active] 272942004501 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272942004502 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272942004503 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 272942004504 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 four-...; Region: RecG_wedge_OBF; cd04488 272942004505 ssDNA binding site; other site 272942004506 generic binding surface II; other site 272942004507 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 272942004508 ATP binding site [chemical binding]; other site 272942004509 putative Mg++ binding site [ion binding]; other site 272942004510 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 272942004511 nucleotide binding region [chemical binding]; other site 272942004512 ATP-binding site [chemical binding]; other site 272942004513 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942004514 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942004515 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272942004516 trimerization site [polypeptide binding]; other site 272942004517 active site 272942004518 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 272942004519 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 272942004520 putative substrate binding site [chemical binding]; other site 272942004521 putative ATP binding site [chemical binding]; other site 272942004522 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 272942004523 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 272942004524 glutamine synthetase; Provisional; Region: glnA; PRK09469 272942004525 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272942004526 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942004527 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272942004528 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272942004529 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272942004530 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272942004531 NAD(P) binding site [chemical binding]; other site 272942004532 homotetramer interface [polypeptide binding]; other site 272942004533 homodimer interface [polypeptide binding]; other site 272942004534 active site 272942004535 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272942004536 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 272942004537 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 272942004538 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 272942004539 dimer interface [polypeptide binding]; other site 272942004540 active site 272942004541 YceG-like family; Region: YceG; pfam02618 272942004542 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 272942004543 dimerization interface [polypeptide binding]; other site 272942004544 Uncharacterized conserved protein [Function unknown]; Region: COG5323 272942004545 large terminase protein; Provisional; Region: 17; PHA02533 272942004546 Phage-related protein [Function unknown]; Region: COG4695; cl01923 272942004547 Phage portal protein; Region: Phage_portal; pfam04860 272942004548 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 272942004549 Phage capsid family; Region: Phage_capsid; pfam05065 272942004550 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 272942004551 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 272942004552 Phage major tail protein 2; Region: Phage_tail_2; cl11463 272942004553 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 272942004554 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 272942004555 Phage-related minor tail protein [Function unknown]; Region: COG5281 272942004556 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 272942004557 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 272942004558 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 272942004559 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 272942004560 NlpC/P60 family; Region: NLPC_P60; cl11438 272942004561 serine acetyltransferase; Provisional; Region: cysE; PRK11132 272942004562 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 272942004563 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 L-...; Region: LbH_SAT; cd03354 272942004564 trimer interface [polypeptide binding]; other site 272942004565 active site 272942004566 substrate binding site [chemical binding]; other site 272942004567 CoA binding site [chemical binding]; other site 272942004568 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272942004569 putative acyl-acceptor binding pocket; other site 272942004570 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 272942004571 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272942004572 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 272942004573 E3 interaction surface; other site 272942004574 lipoyl attachment site [posttranslational modification]; other site 272942004575 e3 binding domain; Region: E3_binding; pfam02817 272942004576 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272942004577 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 272942004578 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 272942004579 E3 interaction surface; other site 272942004580 lipoyl attachment site [posttranslational modification]; other site 272942004581 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 272942004582 alpha subunit interface [polypeptide binding]; other site 272942004583 TPP binding site [chemical binding]; other site 272942004584 heterodimer interface [polypeptide binding]; other site 272942004585 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942004586 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 272942004587 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 272942004588 tetramer interface [polypeptide binding]; other site 272942004589 TPP-binding site [chemical binding]; other site 272942004590 heterodimer interface [polypeptide binding]; other site 272942004591 phosphorylation loop region [posttranslational modification] 272942004592 Septum formation initiator; Region: DivIC; cl11433 272942004593 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 272942004594 catalytic residue [active] 272942004595 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; cl00198 272942004596 substrate binding site [chemical binding]; other site 272942004597 hinge regions; other site 272942004598 ADP binding site [chemical binding]; other site 272942004599 catalytic site [active] 272942004600 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 272942004601 active site 272942004602 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 272942004603 active site 272942004604 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 272942004605 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272942004606 active site 272942004607 HIGH motif; other site 272942004608 dimer interface [polypeptide binding]; other site 272942004609 KMSKS motif; other site 272942004610 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 272942004611 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 272942004612 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 272942004613 enolase; Provisional; Region: eno; PRK00077 272942004614 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 272942004615 dimer interface [polypeptide binding]; other site 272942004616 metal binding site [ion binding]; metal-binding site 272942004617 substrate binding pocket [chemical binding]; other site 272942004618 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272942004619 EamA-like transporter family; Region: EamA; cl01037 272942004620 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 272942004621 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 272942004622 active site 272942004623 tetramer interface [polypeptide binding]; other site 272942004624 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...; Region: ABCF_EF-3; cd03221 272942004625 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 272942004626 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942004627 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...; Region: ABCF_EF-3; cd03221 272942004628 ABC transporter; Region: ABC_tran_2; pfam12848 272942004629 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...; Region: ABCF_EF-3; cd03221 272942004630 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 272942004631 active site 272942004632 multimer interface [polypeptide binding]; other site 272942004633 TfoX N-terminal domain; Region: TfoX_N; cl01167 272942004634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942004635 Predicted transcriptional regulator [Transcription]; Region: COG1959 272942004636 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 272942004637 Arginase family; Region: Arginase; cl00306 272942004638 Integral membrane protein TerC family; Region: TerC; cl10468 272942004639 PAS fold; Region: PAS_4; pfam08448 272942004640 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 272942004641 putative active site [active] 272942004642 heme pocket [chemical binding]; other site 272942004643 PAS domain S-box; Region: sensory_box; TIGR00229 272942004644 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 272942004645 putative active site [active] 272942004646 heme pocket [chemical binding]; other site 272942004647 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 272942004648 PAS fold; Region: PAS_3; pfam08447 272942004649 putative active site [active] 272942004650 heme pocket [chemical binding]; other site 272942004651 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942004652 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942004653 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 272942004654 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 272942004655 putative active site [active] 272942004656 putative FMN binding site [chemical binding]; other site 272942004657 putative substrate binding site [chemical binding]; other site 272942004658 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 272942004659 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 272942004660 dimer interface [polypeptide binding]; other site 272942004661 PYR/PP interface [polypeptide binding]; other site 272942004662 TPP binding site [chemical binding]; other site 272942004663 substrate binding site [chemical binding]; other site 272942004664 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 272942004665 Domain of unknown function; Region: EKR; cl11037 272942004666 4Fe-4S binding domain; Region: Fer4; cl02805 272942004667 TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 272942004668 TPP-binding site [chemical binding]; other site 272942004669 dimer interface [polypeptide binding]; other site 272942004670 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 272942004671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004673 Peptidase family U32; Region: Peptidase_U32; cl03113 272942004674 Peptidase family U32; Region: Peptidase_U32; cl03113 272942004675 SCP-2 sterol transfer family; Region: SCP2; cl01225 272942004676 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 272942004677 Flavoprotein; Region: Flavoprotein; cl08021 272942004678 NnrS protein; Region: NnrS; cl01258 272942004679 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 272942004680 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942004681 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 272942004682 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 272942004683 dimerization interface [polypeptide binding]; other site 272942004684 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 272942004685 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 272942004686 heme binding site [chemical binding]; other site 272942004687 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 272942004688 heme binding site [chemical binding]; other site 272942004689 ABC transporter ATPase component; Reviewed; Region: PRK11147 272942004690 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...; Region: ABCF_EF-3; cd03221 272942004691 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...; Region: ABCF_EF-3; cd03221 272942004692 Domain of unknown function (DUF333); Region: DUF333; pfam03891 272942004693 CoA-transferase family III; Region: CoA_transf_3; cl00778 272942004694 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a...; Region: DsbA_Com1_like; cd03023 272942004695 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272942004696 catalytic residues [active] 272942004697 hypothetical protein; Validated; Region: PRK07682 272942004698 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 272942004699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942004700 homodimer interface [polypeptide binding]; other site 272942004701 catalytic residue [active] 272942004702 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 272942004703 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 272942004704 active site 272942004705 metal binding site [ion binding]; metal-binding site 272942004706 Protein of unknown function, DUF485; Region: DUF485; cl01231 272942004707 Sodium:solute symporter family; Region: SSF; cl00456 272942004708 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272942004709 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 272942004710 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; cl12011 272942004711 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942004712 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 trans-...; Region: HisKA; cd00082 272942004713 dimer interface [polypeptide binding]; other site 272942004714 phosphorylation site [posttranslational modification] 272942004715 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 272942004716 ATP binding site [chemical binding]; other site 272942004717 Mg2+ binding site [ion binding]; other site 272942004718 G-X-G motif; other site 272942004719 Response regulator receiver domain; Region: Response_reg; pfam00072 272942004720 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 272942004721 active site 272942004722 phosphorylation site [posttranslational modification] 272942004723 intermolecular recognition site; other site 272942004724 dimerization interface [polypeptide binding]; other site 272942004725 recombinase A; Provisional; Region: recA; PRK09354 272942004726 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 272942004727 hexamer interface [polypeptide binding]; other site 272942004728 Walker A motif; other site 272942004729 ATP binding site [chemical binding]; other site 272942004730 Walker B motif; other site 272942004731 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272942004732 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...; Region: AlaRS_core; cd00673 272942004733 motif 1; other site 272942004734 active site 272942004735 motif 2; other site 272942004736 motif 3; other site 272942004737 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272942004738 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 272942004739 TIGR03442 family protein; Region: TIGR03442 272942004740 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 272942004741 putative active site [active] 272942004742 putative dimer interface [polypeptide binding]; other site 272942004743 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 272942004744 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942004745 active site 272942004746 HIGH motif; other site 272942004747 nucleotide binding site [chemical binding]; other site 272942004748 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272942004749 KMSKS motif; other site 272942004750 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272942004751 tRNA binding surface [nucleotide binding]; other site 272942004752 anticodon binding site; other site 272942004753 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272942004754 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 272942004755 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 272942004756 active site 272942004757 catalytic residues [active] 272942004758 metal binding site [ion binding]; metal-binding site 272942004759 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 272942004760 Cache domain; Region: Cache_1; pfam02743 272942004761 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272942004762 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942004763 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 272942004764 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272942004765 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942004766 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942004767 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272942004768 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 272942004769 active site 272942004770 phosphorylation site [posttranslational modification] 272942004771 intermolecular recognition site; other site 272942004772 CheB methylesterase; Region: CheB_methylest; pfam01339 272942004773 CheD chemotactic sensory transduction; Region: CheD; cl00810 272942004774 Response regulator receiver domain; Region: Response_reg; pfam00072 272942004775 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 272942004776 active site 272942004777 phosphorylation site [posttranslational modification] 272942004778 intermolecular recognition site; other site 272942004779 dimerization interface [polypeptide binding]; other site 272942004780 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272942004781 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 272942004782 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 272942004783 S-adenosylmethionine binding site [chemical binding]; other site 272942004784 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 272942004785 putative CheA interaction surface; other site 272942004786 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272942004787 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 272942004788 putative binding surface; other site 272942004789 active site 272942004790 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272942004791 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 272942004792 ATP binding site [chemical binding]; other site 272942004793 Mg2+ binding site [ion binding]; other site 272942004794 G-X-G motif; other site 272942004795 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 272942004796 Response regulator receiver domain; Region: Response_reg; pfam00072 272942004797 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 272942004798 active site 272942004799 phosphorylation site [posttranslational modification] 272942004800 intermolecular recognition site; other site 272942004801 dimerization interface [polypeptide binding]; other site 272942004802 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 272942004803 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272942004804 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272942004805 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 272942004806 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 272942004807 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942004808 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942004809 DNA binding site [nucleotide binding] 272942004810 domain linker motif; other site 272942004811 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 272942004812 ligand binding site [chemical binding]; other site 272942004813 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272942004814 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 272942004815 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...; Region: TM_PBP2; cd06261 272942004816 dimer interface [polypeptide binding]; other site 272942004817 conserved gate region; other site 272942004818 putative PBP binding loops; other site 272942004819 ABC-ATPase subunit interface; other site 272942004820 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942004821 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...; Region: TM_PBP2; cd06261 272942004822 ABC-ATPase subunit interface; other site 272942004823 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 272942004824 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 272942004825 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272942004826 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 272942004827 Walker A/P-loop; other site 272942004828 ATP binding site [chemical binding]; other site 272942004829 Q-loop/lid; other site 272942004830 ABC transporter signature motif; other site 272942004831 Walker B; other site 272942004832 D-loop; other site 272942004833 H-loop/switch region; other site 272942004834 TOBE domain; Region: TOBE_2; cl01440 272942004835 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 272942004836 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 272942004837 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 272942004838 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...; Region: DUS_like_FMN; cd02801 272942004839 FMN binding site [chemical binding]; other site 272942004840 active site 272942004841 catalytic residues [active] 272942004842 substrate binding site [chemical binding]; other site 272942004843 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942004844 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 272942004845 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272942004846 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272942004847 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272942004848 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 272942004849 metal binding site [ion binding]; metal-binding site 272942004850 putative dimer interface [polypeptide binding]; other site 272942004851 Preprotein translocase subunit; Region: YajC; cl00806 272942004852 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 272942004853 Protein export membrane protein; Region: SecD_SecF; cl14618 272942004854 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 272942004855 Protein export membrane protein; Region: SecD_SecF; cl14618 272942004856 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as...; Region: Mth938-like; cd00248 272942004857 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 272942004858 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH); Region: ABC_CcmA_heme_exporter; cd03231 272942004859 Walker A/P-loop; other site 272942004860 ATP binding site [chemical binding]; other site 272942004861 Q-loop/lid; other site 272942004862 ABC transporter signature motif; other site 272942004863 Walker B; other site 272942004864 D-loop; other site 272942004865 H-loop/switch region; other site 272942004866 CcmB protein; Region: CcmB; cl01016 272942004867 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 272942004868 Heme exporter protein D (CcmD); Region: CcmD; cl11475 272942004869 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 272942004870 catalytic residues [active] 272942004871 central insert; other site 272942004872 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942004873 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 272942004874 putative coenzyme Q binding site [chemical binding]; other site 272942004875 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 272942004876 Competence-damaged protein; Region: CinA; cl00666 272942004877 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 272942004878 tetramer interfaces [polypeptide binding]; other site 272942004879 binuclear metal-binding site [ion binding]; other site 272942004880 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 272942004881 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272942004882 substrate binding site [chemical binding]; other site 272942004883 dimer interface [polypeptide binding]; other site 272942004884 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...; Region: MECDP_synthase; cd00554 272942004885 homotrimer interaction site [polypeptide binding]; other site 272942004886 zinc binding site [ion binding]; other site 272942004887 CDP-binding sites; other site 272942004888 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...; Region: DUS_like_FMN; cd02801 272942004889 FMN binding site [chemical binding]; other site 272942004890 active site 272942004891 catalytic residues [active] 272942004892 substrate binding site [chemical binding]; other site 272942004893 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942004894 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 272942004895 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 trans-...; Region: HisKA; cd00082 272942004896 dimer interface [polypeptide binding]; other site 272942004897 phosphorylation site [posttranslational modification] 272942004898 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 272942004899 ATP binding site [chemical binding]; other site 272942004900 Mg2+ binding site [ion binding]; other site 272942004901 G-X-G motif; other site 272942004902 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 272942004903 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 272942004904 active site 272942004905 phosphorylation site [posttranslational modification] 272942004906 intermolecular recognition site; other site 272942004907 dimerization interface [polypeptide binding]; other site 272942004908 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...; Region: AAA; cd00009 272942004909 Walker A motif; other site 272942004910 ATP binding site [chemical binding]; other site 272942004911 Walker B motif; other site 272942004912 arginine finger; other site 272942004913 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942004914 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272942004915 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 connected by an extended linker. The...; Region: HAMP; cd06225 272942004916 dimerization interface [polypeptide binding]; other site 272942004917 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 272942004918 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 trans-...; Region: HisKA; cd00082 272942004919 dimer interface [polypeptide binding]; other site 272942004920 phosphorylation site [posttranslational modification] 272942004921 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 272942004922 ATP binding site [chemical binding]; other site 272942004923 Mg2+ binding site [ion binding]; other site 272942004924 G-X-G motif; other site 272942004925 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942004926 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 272942004927 active site 272942004928 phosphorylation site [posttranslational modification] 272942004929 intermolecular recognition site; other site 272942004930 dimerization interface [polypeptide binding]; other site 272942004931 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...; Region: AAA; cd00009 272942004932 Walker A motif; other site 272942004933 ATP binding site [chemical binding]; other site 272942004934 Walker B motif; other site 272942004935 arginine finger; other site 272942004936 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942004937 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 272942004938 Sm1 motif; other site 272942004939 intra - hexamer interaction site; other site 272942004940 inter - hexamer interaction site [polypeptide binding]; other site 272942004941 nucleotide binding pocket [chemical binding]; other site 272942004942 Sm2 motif; other site 272942004943 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272942004944 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 272942004945 G1 box; other site 272942004946 GTP/Mg2+ binding site [chemical binding]; other site 272942004947 Switch I region; other site 272942004948 G2 box; other site 272942004949 G3 box; other site 272942004950 Switch II region; other site 272942004951 G4 box; other site 272942004952 G5 box; other site 272942004953 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 272942004954 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 four-...; Region: Ntn_hydrolase; cl00467 272942004955 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and 7-...; Region: Ntn_PGA_like; cd03747 272942004956 active site 272942004957 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 272942004958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004960 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 272942004961 dimer interface [polypeptide binding]; other site 272942004962 ssDNA binding site [nucleotide binding]; other site 272942004963 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942004964 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 272942004965 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942004966 catalytic residue [active] 272942004967 Family of unknown function (DUF500); Region: DUF500; cl01109 272942004968 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 272942004969 dimer interface [polypeptide binding]; other site 272942004970 active site 272942004971 aspartate-rich active site metal binding site; other site 272942004972 allosteric magnesium binding site [ion binding]; other site 272942004973 Schiff base residues; other site 272942004974 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 272942004975 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 272942004976 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 272942004977 ATP binding site [chemical binding]; other site 272942004978 putative Mg++ binding site [ion binding]; other site 272942004979 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 272942004980 nucleotide binding region [chemical binding]; other site 272942004981 ATP-binding site [chemical binding]; other site 272942004982 TRCF domain; Region: TRCF; cl04088 272942004983 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 272942004984 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 272942004985 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 272942004986 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 272942004987 catalytic residues [active] 272942004988 AMP-binding enzyme; Region: AMP-binding; pfam00501 272942004989 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942004990 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942004991 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272942004992 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 272942004993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942004994 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 272942004995 NAD(P) binding site [chemical binding]; other site 272942004996 active site 272942004997 Protein of unknown function (DUF502); Region: DUF502; cl01107 272942004998 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 272942004999 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 272942005000 substrate binding site [chemical binding]; other site 272942005001 ATP binding site [chemical binding]; other site 272942005002 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 272942005003 rRNA interaction site [nucleotide binding]; other site 272942005004 S8 interaction site; other site 272942005005 putative laminin-1 binding site; other site 272942005006 elongation factor Ts; Provisional; Region: tsf; PRK09377 272942005007 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 272942005008 Elongation factor TS; Region: EF_TS; pfam00889 272942005009 Elongation factor TS; Region: EF_TS; pfam00889 272942005010 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272942005011 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...; Region: LuxR_C_like; cd06170 272942005012 DNA binding residues [nucleotide binding] 272942005013 dimerization interface [polypeptide binding]; other site 272942005014 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 272942005015 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; cl11391 272942005016 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 272942005017 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942005018 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 272942005019 motif II; other site 272942005020 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 272942005021 putative catalytic residue [active] 272942005022 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 272942005023 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...; Region: RPE; cd00429 272942005024 substrate binding site [chemical binding]; other site 272942005025 hexamer interface [polypeptide binding]; other site 272942005026 metal binding site [ion binding]; metal-binding site 272942005027 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 272942005028 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 272942005029 dimer interface [polypeptide binding]; other site 272942005030 active site 272942005031 catalytic residue [active] 272942005032 metal binding site [ion binding]; metal-binding site 272942005033 hypothetical protein; Provisional; Region: PRK08185 272942005034 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...; Region: TBP_aldolase_IIB; cd00947 272942005035 intersubunit interface [polypeptide binding]; other site 272942005036 active site 272942005037 zinc binding site [ion binding]; other site 272942005038 Na+ binding site [ion binding]; other site 272942005039 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 272942005040 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 272942005041 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942005042 transketolase; Reviewed; Region: PRK05899 272942005043 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 272942005044 TPP-binding site [chemical binding]; other site 272942005045 dimer interface [polypeptide binding]; other site 272942005046 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 272942005047 PYR/PP interface [polypeptide binding]; other site 272942005048 dimer interface [polypeptide binding]; other site 272942005049 TPP binding site [chemical binding]; other site 272942005050 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942005051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005052 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-1,7-...; Region: FBPase; cd00354 272942005053 AMP binding site [chemical binding]; other site 272942005054 fructose-1,6-bisphosphatase family protein; Region: PLN02628 272942005055 metal binding site [ion binding]; metal-binding site 272942005056 active site 272942005057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942005058 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942005059 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 272942005060 dimerization interface [polypeptide binding]; other site 272942005061 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 272942005062 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 272942005063 NADP binding site [chemical binding]; other site 272942005064 dimer interface [polypeptide binding]; other site 272942005065 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one...; Region: PGM1; cd03085 272942005066 phosphoglucomutase; Region: PLN02307 272942005067 substrate binding site [chemical binding]; other site 272942005068 dimer interface [polypeptide binding]; other site 272942005069 active site 272942005070 metal binding site [ion binding]; metal-binding site 272942005071 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 272942005072 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 272942005073 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 272942005074 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 272942005075 glycogen synthase; Provisional; Region: glgA; PRK00654 272942005076 ADP-binding pocket [chemical binding]; other site 272942005077 homodimer interface [polypeptide binding]; other site 272942005078 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 272942005079 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272942005080 ligand binding site [chemical binding]; other site 272942005081 oligomer interface [polypeptide binding]; other site 272942005082 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and rate-...; Region: LbH_G1P_AT_C; cd04651 272942005083 dimer interface [polypeptide binding]; other site 272942005084 N-terminal domain interface [polypeptide binding]; other site 272942005085 sulfate 1 binding site; other site 272942005086 glycogen branching enzyme; Provisional; Region: PRK05402 272942005087 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 272942005088 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 272942005089 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 272942005090 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 272942005091 homodimer interface [polypeptide binding]; other site 272942005092 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272942005093 active site pocket [active] 272942005094 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 272942005095 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 272942005096 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942005097 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 trans-...; Region: HisKA; cd00082 272942005098 dimer interface [polypeptide binding]; other site 272942005099 phosphorylation site [posttranslational modification] 272942005100 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 272942005101 ATP binding site [chemical binding]; other site 272942005102 Mg2+ binding site [ion binding]; other site 272942005103 G-X-G motif; other site 272942005104 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272942005105 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 272942005106 trimer interface [polypeptide binding]; other site 272942005107 putative metal binding site [ion binding]; other site 272942005108 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...; Region: GMPK; cd00071 272942005109 catalytic site [active] 272942005110 G-X2-G-X-G-K; other site 272942005111 hypothetical protein; Provisional; Region: PRK11820 272942005112 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 272942005113 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 272942005114 PAS domain; Region: PAS_5; pfam07310 272942005115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 272942005116 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 272942005117 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 272942005118 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 272942005119 conserved cys residue [active] 272942005120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942005121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942005122 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 272942005123 putative ligand binding site [chemical binding]; other site 272942005124 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942005125 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 272942005126 Walker A/P-loop; other site 272942005127 ATP binding site [chemical binding]; other site 272942005128 Q-loop/lid; other site 272942005129 ABC transporter signature motif; other site 272942005130 Walker B; other site 272942005131 D-loop; other site 272942005132 H-loop/switch region; other site 272942005133 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 272942005134 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 272942005135 Walker A/P-loop; other site 272942005136 ATP binding site [chemical binding]; other site 272942005137 Q-loop/lid; other site 272942005138 ABC transporter signature motif; other site 272942005139 Walker B; other site 272942005140 D-loop; other site 272942005141 H-loop/switch region; other site 272942005142 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 272942005143 TM-ABC transporter signature motif; other site 272942005144 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 272942005145 TM-ABC transporter signature motif; other site 272942005146 GMP synthase; Reviewed; Region: guaA; PRK00074 272942005147 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 272942005148 AMP/PPi binding site [chemical binding]; other site 272942005149 candidate oxyanion hole; other site 272942005150 catalytic triad [active] 272942005151 potential glutamine specificity residues [chemical binding]; other site 272942005152 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 272942005153 ATP Binding subdomain [chemical binding]; other site 272942005154 Ligand Binding sites [chemical binding]; other site 272942005155 Dimerization subdomain; other site 272942005156 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272942005157 active site 272942005158 dimer interface [polypeptide binding]; other site 272942005159 metal binding site [ion binding]; metal-binding site 272942005160 shikimate kinase; Reviewed; Region: aroK; PRK00131 272942005161 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...; Region: SK; cd00464 272942005162 ADP binding site [chemical binding]; other site 272942005163 magnesium binding site [ion binding]; other site 272942005164 putative shikimate binding site; other site 272942005165 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 272942005166 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 272942005167 DNA binding site [nucleotide binding] 272942005168 Int/Topo IB signature motif; other site 272942005169 active site 272942005170 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 272942005171 Domain of unknown function DUF21; Region: DUF21; pfam01595 272942005172 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 272942005173 Transporter associated domain; Region: CorC_HlyC; cl08393 272942005174 lipoyl synthase; Provisional; Region: PRK05481 272942005175 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 272942005176 FeS/SAM binding site; other site 272942005177 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 272942005178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005179 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 272942005180 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 272942005181 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272942005182 dimer interface [polypeptide binding]; other site 272942005183 active site 272942005184 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272942005185 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 272942005186 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-2,3-...; Region: LbH_LpxD; cd03352 272942005187 trimer interface [polypeptide binding]; other site 272942005188 active site 272942005189 UDP-GlcNAc binding site [chemical binding]; other site 272942005190 lipid binding site [chemical binding]; lipid-binding site 272942005191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 272942005192 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942005193 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942005194 Peptidase M15; Region: Peptidase_M15_3; cl01194 272942005195 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272942005196 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 272942005197 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942005198 catalytic residue [active] 272942005199 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 272942005200 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 272942005201 FeS assembly ATPase SufC; Region: sufC; TIGR01978 272942005202 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 272942005203 Walker A/P-loop; other site 272942005204 ATP binding site [chemical binding]; other site 272942005205 Q-loop/lid; other site 272942005206 ABC transporter signature motif; other site 272942005207 Walker B; other site 272942005208 D-loop; other site 272942005209 H-loop/switch region; other site 272942005210 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 272942005211 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 272942005212 putative ABC transporter; Region: ycf24; CHL00085 272942005213 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 272942005214 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272942005215 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942005216 Rrf2 family protein; Region: rrf2_super; TIGR00738 272942005217 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 272942005218 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272942005219 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272942005220 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272942005221 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272942005222 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272942005223 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272942005224 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 272942005225 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 272942005226 G1 box; other site 272942005227 putative GEF interaction site [polypeptide binding]; other site 272942005228 GTP/Mg2+ binding site [chemical binding]; other site 272942005229 Switch I region; other site 272942005230 G2 box; other site 272942005231 G3 box; other site 272942005232 Switch II region; other site 272942005233 G4 box; other site 272942005234 G5 box; other site 272942005235 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 272942005236 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...; Region: BipA_TypA_C; cd03710 272942005237 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942005238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005239 Walker A/P-loop; other site 272942005240 ATP binding site [chemical binding]; other site 272942005241 Q-loop/lid; other site 272942005242 ABC transporter signature motif; other site 272942005243 Walker B; other site 272942005244 D-loop; other site 272942005245 H-loop/switch region; other site 272942005246 TOBE domain; Region: TOBE_2; cl01440 272942005247 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...; Region: TM_PBP2; cd06261 272942005248 dimer interface [polypeptide binding]; other site 272942005249 conserved gate region; other site 272942005250 putative PBP binding loops; other site 272942005251 ABC-ATPase subunit interface; other site 272942005252 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...; Region: TM_PBP2; cl00427 272942005253 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...; Region: TM_PBP2; cd06261 272942005254 putative PBP binding loops; other site 272942005255 ABC-ATPase subunit interface; other site 272942005256 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 272942005257 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942005258 DNA-binding site [nucleotide binding]; DNA binding site 272942005259 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 272942005260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942005261 homodimer interface [polypeptide binding]; other site 272942005262 catalytic residue [active] 272942005263 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...; Region: Hint; cl12032 272942005264 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005265 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 272942005266 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005267 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005268 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...; Region: Hint; cl12032 272942005269 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 272942005270 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942005271 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942005272 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942005273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942005274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942005275 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 272942005276 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 272942005277 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 272942005278 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272942005279 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272942005280 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 272942005281 dimer interface [polypeptide binding]; other site 272942005282 active site 272942005283 CoA binding pocket [chemical binding]; other site 272942005284 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 higher-...; Region: HU_IHF; cd00591 272942005285 IHF dimer interface [polypeptide binding]; other site 272942005286 IHF - DNA interface [nucleotide binding]; other site 272942005287 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 272942005288 DNA binding residues [nucleotide binding] 272942005289 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 272942005290 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272942005291 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272942005292 trimer interface [polypeptide binding]; other site 272942005293 active site 272942005294 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272942005295 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 272942005296 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 272942005297 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 272942005298 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...; Region: IMPDH; cd00381 272942005299 active site 272942005300 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA proteins; Region: TDT_TehA_like; cd09322 272942005301 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 272942005302 EamA-like transporter family; Region: EamA; cl01037 272942005303 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 272942005304 proposed active site lysine [active] 272942005305 conserved cys residue [active] 272942005306 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 272942005307 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 272942005308 Int/Topo IB signature motif; other site 272942005309 active site 272942005310 DNA binding site [nucleotide binding] 272942005311 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 272942005312 RNA/DNA hybrid binding site [nucleotide binding]; other site 272942005313 active site 272942005314 Predicted type IV restriction endonuclease [Defense mechanisms]; Region: COG2810 272942005315 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272942005316 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 272942005317 ATP binding site [chemical binding]; other site 272942005318 putative Mg++ binding site [ion binding]; other site 272942005319 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 272942005320 nucleotide binding region [chemical binding]; other site 272942005321 ATP-binding site [chemical binding]; other site 272942005322 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 272942005323 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942005324 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 272942005325 HsdM N-terminal domain; Region: HsdM_N; pfam12161 272942005326 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272942005327 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272942005328 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 272942005329 catalytic residues [active] 272942005330 catalytic nucleophile [active] 272942005331 Presynaptic Site I dimer interface [polypeptide binding]; other site 272942005332 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272942005333 Synaptic Flat tetramer interface [polypeptide binding]; other site 272942005334 Synaptic Site I dimer interface [polypeptide binding]; other site 272942005335 DNA binding site [nucleotide binding] 272942005336 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; cl01116 272942005337 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...; Region: GT_MraY_like; cd06912 272942005338 Mg++ binding site [ion binding]; other site 272942005339 putative catalytic motif [active] 272942005340 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 272942005341 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2)...; Region: phosphohexomutase; cl03757 272942005342 active site 272942005343 substrate binding site [chemical binding]; other site 272942005344 metal binding site [ion binding]; metal-binding site 272942005345 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 272942005346 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272942005347 Substrate binding site [chemical binding]; other site 272942005348 Cupin domain; Region: Cupin_2; cl09118 272942005349 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 272942005350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942005351 NAD(P) binding site [chemical binding]; other site 272942005352 active site 272942005353 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005354 hypothetical protein; Provisional; Region: PRK07208 272942005355 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942005356 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 272942005357 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 272942005358 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 272942005359 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942005360 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 272942005361 putative ADP-binding pocket [chemical binding]; other site 272942005362 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 272942005363 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942005364 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942005365 Chain length determinant protein; Region: Wzz; cl01623 272942005366 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 272942005367 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942005368 Bacterial sugar transferase; Region: Bac_transf; cl00939 272942005369 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942005370 polysaccharide export protein Wza; Provisional; Region: PRK15078 272942005371 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272942005372 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 272942005373 putative NAD(P) binding site [chemical binding]; other site 272942005374 active site 272942005375 putative substrate binding site [chemical binding]; other site 272942005376 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942005377 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 272942005378 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 272942005379 tyrosine kinase; Provisional; Region: PRK11519 272942005380 Chain length determinant protein; Region: Wzz; cl01623 272942005381 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942005382 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942005383 Active site [active] 272942005384 polysaccharide export protein Wza; Provisional; Region: PRK15078 272942005385 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942005386 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942005387 active site 272942005388 HIGH motif; other site 272942005389 nucleotide binding site [chemical binding]; other site 272942005390 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942005391 active site 272942005392 KMSKS motif; other site 272942005393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942005394 Glucose inhibited division protein A; Region: GIDA; pfam01134 272942005395 DNA gyrase, A subunit; Region: gyrA; TIGR01063 272942005396 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...; Region: TOP4c; cd00187 272942005397 CAP-like domain; other site 272942005398 Active site [active] 272942005399 primary dimer interface [polypeptide binding]; other site 272942005400 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272942005401 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272942005402 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272942005403 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 272942005404 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272942005405 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 272942005406 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272942005407 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 272942005408 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 272942005409 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...; Region: HNHc; cl00083 272942005410 Phage terminase, small subunit; Region: Terminase_4; cl01525 272942005411 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 272942005412 Phage Terminase; Region: Terminase_1; pfam03354 272942005413 Phage portal protein; Region: Phage_portal; pfam04860 272942005414 Phage-related protein [Function unknown]; Region: COG4695; cl01923 272942005415 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 272942005416 tandem repeat interface [polypeptide binding]; other site 272942005417 oligomer interface [polypeptide binding]; other site 272942005418 active site residues [active] 272942005419 Phage capsid family; Region: Phage_capsid; pfam05065 272942005420 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 272942005421 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 272942005422 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 272942005423 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 272942005424 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942005425 NlpC/P60 family; Region: NLPC_P60; cl11438 272942005426 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 272942005427 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 272942005428 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons...; Region: RT_like; cl02808 272942005429 integrase; Provisional; Region: PRK09692 272942005430 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 272942005431 active site 272942005432 Int/Topo IB signature motif; other site 272942005433 trigger factor; Provisional; Region: tig; PRK01490 272942005434 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 272942005435 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272942005436 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272942005437 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272942005438 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272942005439 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 272942005440 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 272942005441 EamA-like transporter family; Region: EamA; cl01037 272942005442 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272942005443 EamA-like transporter family; Region: EamA; cl01037 272942005444 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 272942005445 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 272942005446 NAD(P) binding site [chemical binding]; other site 272942005447 catalytic residues [active] 272942005448 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 272942005449 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942005450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005451 Walker A/P-loop; other site 272942005452 ATP binding site [chemical binding]; other site 272942005453 Q-loop/lid; other site 272942005454 ABC transporter signature motif; other site 272942005455 Walker B; other site 272942005456 D-loop; other site 272942005457 H-loop/switch region; other site 272942005458 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 272942005459 TM-ABC transporter signature motif; other site 272942005460 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 272942005461 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 272942005462 ligand binding site [chemical binding]; other site 272942005463 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 272942005464 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 272942005465 motif II; other site 272942005466 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272942005467 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942005468 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942005469 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 272942005470 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272942005471 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...; Region: TM_PBP2; cd06261 272942005472 putative PBP binding loops; other site 272942005473 ABC-ATPase subunit interface; other site 272942005474 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942005475 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...; Region: TM_PBP2; cd06261 272942005476 dimer interface [polypeptide binding]; other site 272942005477 conserved gate region; other site 272942005478 putative PBP binding loops; other site 272942005479 ABC-ATPase subunit interface; other site 272942005480 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272942005481 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 272942005482 Walker A/P-loop; other site 272942005483 ATP binding site [chemical binding]; other site 272942005484 Q-loop/lid; other site 272942005485 ABC transporter signature motif; other site 272942005486 Walker B; other site 272942005487 D-loop; other site 272942005488 H-loop/switch region; other site 272942005489 TOBE domain; Region: TOBE_2; cl01440 272942005490 sorbitol dehydrogenase; Provisional; Region: PRK07067 272942005491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942005492 NAD(P) binding site [chemical binding]; other site 272942005493 active site 272942005494 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 272942005495 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 272942005496 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 272942005497 FeoA domain; Region: FeoA; cl00838 272942005498 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 272942005499 ferrous iron transporter FeoB; Region: feoB; TIGR00437 272942005500 G1 box; other site 272942005501 GTP/Mg2+ binding site [chemical binding]; other site 272942005502 Switch I region; other site 272942005503 G2 box; other site 272942005504 G3 box; other site 272942005505 Switch II region; other site 272942005506 G4 box; other site 272942005507 G5 box; other site 272942005508 Nucleoside recognition; Region: Gate; cl00486 272942005509 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272942005510 Nucleoside recognition; Region: Gate; cl00486 272942005511 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 272942005512 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 272942005513 Predicted membrane protein [Function unknown]; Region: COG3748 272942005514 Protein of unknown function (DUF989); Region: DUF989; pfam06181 272942005515 Cytochrome c; Region: Cytochrom_C; cl11414 272942005516 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 272942005517 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 272942005518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942005519 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 272942005520 CitB domain protein; Region: CitB; TIGR02484 272942005521 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 272942005522 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272942005523 Walker A/P-loop; other site 272942005524 ATP binding site [chemical binding]; other site 272942005525 Q-loop/lid; other site 272942005526 ABC transporter signature motif; other site 272942005527 Walker B; other site 272942005528 D-loop; other site 272942005529 H-loop/switch region; other site 272942005530 Cobalt transport protein; Region: CbiQ; cl00463 272942005531 Cobalt transport protein component CbiN; Region: CbiN; cl00842 272942005532 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 272942005533 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942005534 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942005535 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942005536 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942005537 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 272942005538 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; cl12011 272942005539 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 272942005540 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942005541 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272942005542 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 272942005543 Precorrin-8X methylmutase; Region: CbiC; pfam02570 272942005544 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 272942005545 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 272942005546 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942005547 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272942005548 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942005549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005550 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 272942005551 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...; Region: CobA_CobO_BtuR; cd00561 272942005552 homodimer interface [polypeptide binding]; other site 272942005553 Walker A motif; other site 272942005554 ATP binding site [chemical binding]; other site 272942005555 hydroxycobalamin binding site [chemical binding]; other site 272942005556 Walker B motif; other site 272942005557 cobyric acid synthase; Provisional; Region: PRK00784 272942005558 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942005559 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272942005560 catalytic triad [active] 272942005561 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(; Region: BluB; cd02145 272942005562 putative FMN binding site [chemical binding]; other site 272942005563 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 272942005564 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 272942005565 catalytic residue [active] 272942005566 CobD/Cbib protein; Region: CobD_Cbib; cl00561 272942005567 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 272942005568 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 272942005569 catalytic core [active] 272942005570 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 272942005571 homotrimer interface [polypeptide binding]; other site 272942005572 Walker A motif; other site 272942005573 GTP binding site [chemical binding]; other site 272942005574 Walker B motif; other site 272942005575 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 272942005576 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 272942005577 putative dimer interface [polypeptide binding]; other site 272942005578 active site pocket [active] 272942005579 putative cataytic base [active] 272942005580 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 272942005581 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005582 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005583 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...; Region: Hint; cl12032 272942005584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942005585 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 272942005586 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 272942005587 active site 272942005588 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005589 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005590 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942005591 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 272942005592 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942005593 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; cl11391 272942005594 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 272942005595 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 (mostly non-lantibiotic). The...; Region: Peptidase_C39_like; cl00296 272942005596 putative active site [active] 272942005597 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942005598 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005599 Walker A/P-loop; other site 272942005600 ATP binding site [chemical binding]; other site 272942005601 Q-loop/lid; other site 272942005602 ABC transporter signature motif; other site 272942005603 Walker B; other site 272942005604 D-loop; other site 272942005605 H-loop/switch region; other site 272942005606 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272942005607 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; cl12011 272942005608 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 272942005609 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 272942005610 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 272942005611 dimerization interface [polypeptide binding]; other site 272942005612 putative DNA binding site [nucleotide binding]; other site 272942005613 putative Zn2+ binding site [ion binding]; other site 272942005614 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942005615 Active site [active] 272942005616 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 272942005617 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 272942005618 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942005619 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 272942005620 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 272942005621 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 272942005622 putative active site [active] 272942005623 heme pocket [chemical binding]; other site 272942005624 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942005625 metal binding site [ion binding]; metal-binding site 272942005626 active site 272942005627 I-site; other site 272942005628 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 272942005629 SET domain; Region: SET; cl02566 272942005630 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 272942005631 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 272942005632 Mg2+ binding site [ion binding]; other site 272942005633 G-X-G motif; other site 272942005634 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 272942005635 anchoring element; other site 272942005636 dimer interface [polypeptide binding]; other site 272942005637 ATP binding site [chemical binding]; other site 272942005638 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 272942005639 active site 272942005640 metal binding site [ion binding]; metal-binding site 272942005641 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272942005642 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 272942005643 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 272942005644 motif II; other site 272942005645 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; cl11391 272942005646 (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. (R)-hydratase contains a hot-dog fold similar to those of...; Region: R_hydratase; cd03449 272942005647 dimer interaction site [polypeptide binding]; other site 272942005648 substrate-binding tunnel; other site 272942005649 active site 272942005650 catalytic site [active] 272942005651 substrate binding site [chemical binding]; other site 272942005652 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272942005653 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272942005654 active site 272942005655 Riboflavin kinase; Region: Flavokinase; cl03312 272942005656 Flagellin N-methylase; Region: FliB; cl00497 272942005657 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 272942005658 tetramer interface [polypeptide binding]; other site 272942005659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942005660 catalytic residue [active] 272942005661 Phage integrase family; Region: Phage_integrase; pfam00589 272942005662 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 272942005663 DNA binding site [nucleotide binding] 272942005664 Int/Topo IB signature motif; other site 272942005665 active site 272942005666 catalytic residues [active] 272942005667 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 272942005668 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272942005669 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272942005670 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272942005671 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; cl01116 272942005672 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; cl01116 272942005673 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; cl01116 272942005674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005675 Protein of unknown function, DUF; Region: DUF411; cl01142 272942005676 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 272942005677 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272942005678 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272942005679 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272942005680 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 272942005681 ornithine cyclodeaminase; Validated; Region: PRK07589 272942005682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942005683 Arginase family; Region: Arginase; cl00306 272942005684 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942005685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942005686 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942005687 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 272942005688 Walker A/P-loop; other site 272942005689 ATP binding site [chemical binding]; other site 272942005690 Q-loop/lid; other site 272942005691 ABC transporter signature motif; other site 272942005692 Walker B; other site 272942005693 H-loop/switch region; other site 272942005694 Cache domain; Region: Cache_2; cl07034 272942005695 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942005696 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942005697 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942005698 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 272942005699 trimer interface [polypeptide binding]; other site 272942005700 active site 272942005701 substrate binding site [chemical binding]; other site 272942005702 CoA binding site [chemical binding]; other site 272942005703 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 272942005704 S-adenosylmethionine binding site [chemical binding]; other site 272942005705 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942005706 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 272942005707 Walker A/P-loop; other site 272942005708 ATP binding site [chemical binding]; other site 272942005709 Q-loop/lid; other site 272942005710 ABC transporter signature motif; other site 272942005711 Walker B; other site 272942005712 D-loop; other site 272942005713 H-loop/switch region; other site 272942005714 TOBE domain; Region: TOBE_2; cl01440 272942005715 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272942005716 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 272942005717 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272942005718 active site 272942005719 substrate binding site [chemical binding]; other site 272942005720 catalytic site [active] 272942005721 Response regulator receiver domain; Region: Response_reg; pfam00072 272942005722 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 272942005723 active site 272942005724 phosphorylation site [posttranslational modification] 272942005725 intermolecular recognition site; other site 272942005726 dimerization interface [polypeptide binding]; other site 272942005727 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 272942005728 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 272942005729 ligand binding site [chemical binding]; other site 272942005730 flexible hinge region; other site 272942005731 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain...; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 272942005732 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942005733 metal binding triad; other site 272942005734 Sodium:solute symporter family; Region: SSF; cl00456 272942005735 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272942005736 Protein of unknown function, DUF485; Region: DUF485; cl01231 272942005737 acetyl-CoA synthetase; Provisional; Region: PRK00174 272942005738 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 272942005739 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942005740 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 272942005741 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 272942005742 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 272942005743 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 272942005744 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272942005745 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 272942005746 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 272942005747 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272942005748 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 272942005749 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 272942005750 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 272942005751 active site 272942005752 metal binding site [ion binding]; metal-binding site 272942005753 DNA binding site [nucleotide binding] 272942005754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005755 Walker A/P-loop; other site 272942005756 ATP binding site [chemical binding]; other site 272942005757 Q-loop/lid; other site 272942005758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005759 ABC transporter signature motif; other site 272942005760 Walker B; other site 272942005761 D-loop; other site 272942005762 H-loop/switch region; other site 272942005763 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 272942005764 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272942005765 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272942005766 homodimer interface [polypeptide binding]; other site 272942005767 NADP binding site [chemical binding]; other site 272942005768 substrate binding site [chemical binding]; other site 272942005769 Uncharacterized conserved protein [Function unknown]; Region: COG2966 272942005770 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 272942005771 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942005772 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942005773 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 272942005774 putative ligand binding site [chemical binding]; other site 272942005775 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942005776 Cell division protein ZapA; Region: ZapA; cl01146 272942005777 hypothetical protein; Provisional; Region: PRK11281 272942005778 transketolase; Reviewed; Region: PRK05899 272942005779 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 272942005780 TPP-binding site [chemical binding]; other site 272942005781 dimer interface [polypeptide binding]; other site 272942005782 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 272942005783 PYR/PP interface [polypeptide binding]; other site 272942005784 dimer interface [polypeptide binding]; other site 272942005785 TPP binding site [chemical binding]; other site 272942005786 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942005787 EamA-like transporter family; Region: EamA; cl01037 272942005788 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 272942005789 putative acyl-acceptor binding pocket; other site 272942005790 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 272942005791 aconitate hydratase; Validated; Region: PRK09277 272942005792 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 272942005793 substrate binding site [chemical binding]; other site 272942005794 ligand binding site [chemical binding]; other site 272942005795 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 272942005796 substrate binding site [chemical binding]; other site 272942005797 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942005798 TM2 domain; Region: TM2; cl00984 272942005799 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 272942005800 TM2 domain; Region: TM2; cl00984 272942005801 Predicted integral membrane protein [Function unknown]; Region: COG0392 272942005802 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 272942005803 Uncharacterized conserved protein [Function unknown]; Region: COG2898 272942005804 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 272942005805 adenylosuccinate lyase; Provisional; Region: PRK07492 272942005806 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 272942005807 tetramer interface [polypeptide binding]; other site 272942005808 active site 272942005809 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 272942005810 FliG C-terminal domain; Region: FliG_C; pfam01706 272942005811 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 272942005812 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 272942005813 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942005814 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 272942005815 Transglycosylase; Region: Transgly; cl07896 272942005816 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 272942005817 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 272942005818 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 272942005819 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 two-...; Region: SirA_YedF_YeeD; cd00291 272942005820 CPxP motif; other site 272942005821 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 272942005822 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 272942005823 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 272942005824 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272942005825 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 272942005826 active site 272942005827 phosphorylation site [posttranslational modification] 272942005828 intermolecular recognition site; other site 272942005829 dimerization interface [polypeptide binding]; other site 272942005830 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...; Region: AAA; cd00009 272942005831 Walker A motif; other site 272942005832 ATP binding site [chemical binding]; other site 272942005833 Walker B motif; other site 272942005834 arginine finger; other site 272942005835 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942005836 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 272942005837 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 trans-...; Region: HisKA; cd00082 272942005838 dimer interface [polypeptide binding]; other site 272942005839 phosphorylation site [posttranslational modification] 272942005840 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 272942005841 ATP binding site [chemical binding]; other site 272942005842 Mg2+ binding site [ion binding]; other site 272942005843 G-X-G motif; other site 272942005844 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 272942005845 putative active site [active] 272942005846 catalytic triad [active] 272942005847 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 272942005848 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 272942005849 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 272942005850 ATP binding site [chemical binding]; other site 272942005851 active site 272942005852 substrate binding site [chemical binding]; other site 272942005853 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 272942005854 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 272942005855 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 272942005856 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 272942005857 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 272942005858 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272942005859 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 272942005860 FeS/SAM binding site; other site 272942005861 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 272942005862 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 272942005863 B12 binding site [chemical binding]; other site 272942005864 cobalt ligand [ion binding]; other site 272942005865 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 272942005866 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 272942005867 AzlC protein; Region: AzlC; cl00570 272942005868 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272942005869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942005870 DNA-binding site [nucleotide binding]; DNA binding site 272942005871 FCD domain; Region: FCD; cl11656 272942005872 putative aminotransferase; Validated; Region: PRK07480 272942005873 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 272942005874 inhibitor-cofactor binding pocket; inhibition site 272942005875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942005876 catalytic residue [active] 272942005877 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 272942005878 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005879 Walker A/P-loop; other site 272942005880 ATP binding site [chemical binding]; other site 272942005881 Q-loop/lid; other site 272942005882 ABC transporter signature motif; other site 272942005883 Walker B; other site 272942005884 D-loop; other site 272942005885 H-loop/switch region; other site 272942005886 TOBE domain; Region: TOBE_2; cl01440 272942005887 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...; Region: TM_PBP2; cl00427 272942005888 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942005889 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...; Region: TM_PBP2; cd06261 272942005890 putative PBP binding loops; other site 272942005891 ABC-ATPase subunit interface; other site 272942005892 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 272942005893 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 272942005894 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 272942005895 active site 272942005896 hypothetical protein; Provisional; Region: PRK13560 272942005897 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 272942005898 putative active site [active] 272942005899 heme pocket [chemical binding]; other site 272942005900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942005901 metal binding site [ion binding]; metal-binding site 272942005902 active site 272942005903 I-site; other site 272942005904 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 272942005905 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 272942005906 putative metal binding site [ion binding]; other site 272942005907 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 272942005908 metal-binding site [ion binding] 272942005909 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 272942005910 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942005911 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; cl11391 272942005912 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 272942005913 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 272942005914 DNA binding residues [nucleotide binding] 272942005915 dimer interface [polypeptide binding]; other site 272942005916 putative metal binding site [ion binding]; other site 272942005917 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 272942005918 putative substrate translocation pore; other site 272942005919 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272942005920 endonuclease III; Region: ENDO3c; smart00478 272942005921 minor groove reading motif; other site 272942005922 helix-hairpin-helix signature motif; other site 272942005923 substrate binding pocket [chemical binding]; other site 272942005924 active site 272942005925 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 272942005926 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 272942005927 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...; Region: HNHc; cd00085 272942005928 active site 272942005929 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; cl12011 272942005930 Response regulator receiver domain; Region: Response_reg; pfam00072 272942005931 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 272942005932 active site 272942005933 phosphorylation site [posttranslational modification] 272942005934 intermolecular recognition site; other site 272942005935 dimerization interface [polypeptide binding]; other site 272942005936 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942005937 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942005938 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 272942005939 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 272942005940 Histidine kinase; Region: His_kinase; pfam06580 272942005941 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 272942005942 ATP binding site [chemical binding]; other site 272942005943 Mg2+ binding site [ion binding]; other site 272942005944 G-X-G motif; other site 272942005945 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 272942005946 4Fe-4S binding domain; Region: Fer4; cl02805 272942005947 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; cl15259 272942005948 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 272942005949 Hexamer interface [polypeptide binding]; other site 272942005950 Hexagonal pore residue; other site 272942005951 aldehyde dehydrogenase EutE; Provisional; Region: PRK15398 272942005952 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 272942005953 putative catalytic cysteine [active] 272942005954 Domain of unknown function (DUF336); Region: DUF336; cl01249 272942005955 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 272942005956 Hexamer/Pentamer interface [polypeptide binding]; other site 272942005957 central pore; other site 272942005958 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 272942005959 Cell division protein FtsA; Region: FtsA; cl11496 272942005960 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 272942005961 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272942005962 Propanediol utilisation protein PduL; Region: PduL; pfam06130 272942005963 propanediol utilization protein PduB; Provisional; Region: PRK15415 272942005964 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 272942005965 putative hexamer interface [polypeptide binding]; other site 272942005966 putative hexagonal pore; other site 272942005967 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 272942005968 putative hexamer interface [polypeptide binding]; other site 272942005969 putative hexagonal pore; other site 272942005970 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 272942005971 Hexamer interface [polypeptide binding]; other site 272942005972 Putative hexagonal pore residue; other site 272942005973 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272942005974 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 272942005975 active site 272942005976 NAD binding site [chemical binding]; other site 272942005977 metal binding site [ion binding]; metal-binding site 272942005978 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 272942005979 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 272942005980 dimer interface [polypeptide binding]; other site 272942005981 active site 272942005982 glycine loop; other site 272942005983 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 272942005984 conserved cys residue [active] 272942005985 Acetokinase family; Region: Acetate_kinase; cl01029 272942005986 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 272942005987 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 272942005988 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...; Region: TM_PBP2; cl00427 272942005989 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 272942005990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942005991 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272942005992 Walker A/P-loop; other site 272942005993 ATP binding site [chemical binding]; other site 272942005994 Q-loop/lid; other site 272942005995 ABC transporter signature motif; other site 272942005996 Walker B; other site 272942005997 D-loop; other site 272942005998 H-loop/switch region; other site 272942005999 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 272942006000 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 272942006001 catalytic triad [active] 272942006002 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 272942006003 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 272942006004 active site 272942006005 non-prolyl cis peptide bond; other site 272942006006 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...; Region: TM_PBP2; cd06261 272942006007 dimer interface [polypeptide binding]; other site 272942006008 conserved gate region; other site 272942006009 putative PBP binding loops; other site 272942006010 ABC-ATPase subunit interface; other site 272942006011 NMT1/THI5 like; Region: NMT1; pfam09084 272942006012 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272942006013 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942006014 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 272942006015 Walker A/P-loop; other site 272942006016 ATP binding site [chemical binding]; other site 272942006017 Q-loop/lid; other site 272942006018 ABC transporter signature motif; other site 272942006019 Walker B; other site 272942006020 D-loop; other site 272942006021 H-loop/switch region; other site 272942006022 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 272942006023 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272942006024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 272942006025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942006026 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 272942006027 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 272942006028 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 272942006029 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942006030 nitrogenase iron protein; Region: nifH; TIGR01287 272942006031 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 272942006032 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; cl15259 272942006033 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 272942006034 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272942006035 PYR/PP interface [polypeptide binding]; other site 272942006036 dimer interface [polypeptide binding]; other site 272942006037 TPP binding site [chemical binding]; other site 272942006038 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 272942006039 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...; Region: TPP_enzymes; cl01629 272942006040 TPP-binding site [chemical binding]; other site 272942006041 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 272942006042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942006043 DNA-binding site [nucleotide binding]; DNA binding site 272942006044 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 272942006045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006046 homodimer interface [polypeptide binding]; other site 272942006047 catalytic residue [active] 272942006048 aminotransferase; Validated; Region: PRK07678 272942006049 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 272942006050 inhibitor-cofactor binding pocket; inhibition site 272942006051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006052 catalytic residue [active] 272942006053 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 272942006054 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...; Region: PBPb; cl15306 272942006055 substrate binding pocket [chemical binding]; other site 272942006056 membrane-bound complex binding site; other site 272942006057 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942006058 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 272942006059 Walker A/P-loop; other site 272942006060 ATP binding site [chemical binding]; other site 272942006061 Q-loop/lid; other site 272942006062 ABC transporter signature motif; other site 272942006063 Walker B; other site 272942006064 D-loop; other site 272942006065 H-loop/switch region; other site 272942006066 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...; Region: TM_PBP2; cd06261 272942006067 dimer interface [polypeptide binding]; other site 272942006068 conserved gate region; other site 272942006069 putative PBP binding loops; other site 272942006070 ABC-ATPase subunit interface; other site 272942006071 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272942006072 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 272942006073 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942006074 catalytic residue [active] 272942006075 serine O-acetyltransferase; Region: cysE; TIGR01172 272942006076 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 L-...; Region: LbH_SAT; cd03354 272942006077 trimer interface [polypeptide binding]; other site 272942006078 active site 272942006079 substrate binding site [chemical binding]; other site 272942006080 CoA binding site [chemical binding]; other site 272942006081 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 272942006082 active site residue [active] 272942006083 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272942006084 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...; Region: Aldo_ket_red; cd06660 272942006085 active site 272942006086 catalytic tetrad [active] 272942006087 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 272942006088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942006089 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942006090 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 272942006091 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 272942006092 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 272942006093 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 272942006094 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272942006095 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; cl11391 272942006096 K+-transporting ATPase, c chain; Region: KdpC; cl00944 272942006097 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 272942006098 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 272942006099 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 272942006100 Ligand Binding Site [chemical binding]; other site 272942006101 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 trans-...; Region: HisKA; cd00082 272942006102 dimer interface [polypeptide binding]; other site 272942006103 phosphorylation site [posttranslational modification] 272942006104 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 272942006105 ATP binding site [chemical binding]; other site 272942006106 Mg2+ binding site [ion binding]; other site 272942006107 G-X-G motif; other site 272942006108 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 272942006109 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 272942006110 active site 272942006111 phosphorylation site [posttranslational modification] 272942006112 intermolecular recognition site; other site 272942006113 dimerization interface [polypeptide binding]; other site 272942006114 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...; Region: trans_reg_C; cd00383 272942006115 DNA binding site [nucleotide binding] 272942006116 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 272942006117 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942006118 catalytic residue [active] 272942006119 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 272942006120 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 272942006121 putative trimer interface [polypeptide binding]; other site 272942006122 putative CoA binding site [chemical binding]; other site 272942006123 WbqC-like protein family; Region: WbqC; pfam08889 272942006124 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 272942006125 S-adenosylmethionine binding site [chemical binding]; other site 272942006126 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 272942006127 active site 272942006128 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 272942006129 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272942006130 classical (c) SDRs; Region: SDR_c; cd05233 272942006131 NAD(P) binding site [chemical binding]; other site 272942006132 active site 272942006133 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272942006134 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...; Region: TM_PBP2; cl00427 272942006135 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...; Region: TM_PBP2; cd06261 272942006136 putative PBP binding loops; other site 272942006137 dimer interface [polypeptide binding]; other site 272942006138 ABC-ATPase subunit interface; other site 272942006139 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942006140 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 272942006141 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942006142 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...; Region: ABC_PotA_N; cd03300 272942006143 Walker A/P-loop; other site 272942006144 ATP binding site [chemical binding]; other site 272942006145 Q-loop/lid; other site 272942006146 ABC transporter signature motif; other site 272942006147 Walker B; other site 272942006148 D-loop; other site 272942006149 H-loop/switch region; other site 272942006150 TOBE domain; Region: TOBE_2; cl01440 272942006151 transcriptional regulator EpsA; Region: EpsA; TIGR03020 272942006152 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...; Region: LuxR_C_like; cd06170 272942006153 DNA binding residues [nucleotide binding] 272942006154 dimerization interface [polypeptide binding]; other site 272942006155 Arginase family; Region: Arginase; cl00306 272942006156 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 272942006157 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942006158 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 272942006159 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 272942006160 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 272942006161 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 272942006162 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 272942006163 peptide binding site [polypeptide binding]; other site 272942006164 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 272942006165 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...; Region: TM_PBP2; cd06261 272942006166 dimer interface [polypeptide binding]; other site 272942006167 conserved gate region; other site 272942006168 putative PBP binding loops; other site 272942006169 ABC-ATPase subunit interface; other site 272942006170 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...; Region: TM_PBP2; cd06261 272942006171 dimer interface [polypeptide binding]; other site 272942006172 conserved gate region; other site 272942006173 putative PBP binding loops; other site 272942006174 ABC-ATPase subunit interface; other site 272942006175 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 272942006176 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 272942006177 Walker A/P-loop; other site 272942006178 ATP binding site [chemical binding]; other site 272942006179 Q-loop/lid; other site 272942006180 ABC transporter signature motif; other site 272942006181 Walker B; other site 272942006182 D-loop; other site 272942006183 H-loop/switch region; other site 272942006184 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942006185 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 272942006186 Walker A/P-loop; other site 272942006187 ATP binding site [chemical binding]; other site 272942006188 Q-loop/lid; other site 272942006189 ABC transporter signature motif; other site 272942006190 Walker B; other site 272942006191 D-loop; other site 272942006192 H-loop/switch region; other site 272942006193 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 272942006194 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 272942006195 4Fe-4S binding domain; Region: Fer4; cl02805 272942006196 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 272942006197 tetrathionate reductase subunit A; Provisional; Region: PRK14991 272942006198 molybdopterin cofactor binding site; other site 272942006199 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 272942006200 The MopB_CT_2 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. This CD...; Region: MopB_CT_2; cd02783 272942006201 putative molybdopterin cofactor binding site; other site 272942006202 Domain of unknown function DUF20; Region: UPF0118; cl00465 272942006203 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; cl09110 272942006204 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; cl09110 272942006205 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272942006206 two-component response regulator; Provisional; Region: PRK09191 272942006207 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942006208 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 272942006209 active site 272942006210 phosphorylation site [posttranslational modification] 272942006211 intermolecular recognition site; other site 272942006212 dimerization interface [polypeptide binding]; other site 272942006213 RNA polymerase sigma factor; Provisional; Region: PRK12546 272942006214 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942006215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272942006216 Histidine kinase; Region: HisKA_2; cl06527 272942006217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272942006218 Histidine kinase; Region: HisKA_2; cl06527 272942006219 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 272942006220 ATP binding site [chemical binding]; other site 272942006221 Mg2+ binding site [ion binding]; other site 272942006222 G-X-G motif; other site 272942006223 gamma-glutamyl kinase; Provisional; Region: PRK05429 272942006224 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 272942006225 nucleotide binding site [chemical binding]; other site 272942006226 homotetrameric interface [polypeptide binding]; other site 272942006227 putative phosphate binding site [ion binding]; other site 272942006228 putative allosteric binding site; other site 272942006229 PUA domain; Region: PUA; cl00607 272942006230 GTPase CgtA; Reviewed; Region: obgE; PRK12299 272942006231 GTP1/OBG; Region: GTP1_OBG; pfam01018 272942006232 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 272942006233 G1 box; other site 272942006234 GTP/Mg2+ binding site [chemical binding]; other site 272942006235 Switch I region; other site 272942006236 G2 box; other site 272942006237 G3 box; other site 272942006238 Switch II region; other site 272942006239 G4 box; other site 272942006240 G5 box; other site 272942006241 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942006242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942006243 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942006244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942006245 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 272942006246 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 272942006247 GTP-binding protein Der; Reviewed; Region: PRK00093 272942006248 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 272942006249 G1 box; other site 272942006250 GTP/Mg2+ binding site [chemical binding]; other site 272942006251 Switch I region; other site 272942006252 G2 box; other site 272942006253 Switch II region; other site 272942006254 G3 box; other site 272942006255 G4 box; other site 272942006256 G5 box; other site 272942006257 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 272942006258 G1 box; other site 272942006259 GTP/Mg2+ binding site [chemical binding]; other site 272942006260 Switch I region; other site 272942006261 G2 box; other site 272942006262 G3 box; other site 272942006263 Switch II region; other site 272942006264 G4 box; other site 272942006265 G5 box; other site 272942006266 FOG: WD40-like repeat [Function unknown]; Region: COG1520 272942006267 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 272942006268 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 272942006269 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 272942006270 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942006271 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 272942006272 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 272942006273 Walker A/P-loop; other site 272942006274 ATP binding site [chemical binding]; other site 272942006275 Q-loop/lid; other site 272942006276 ABC transporter signature motif; other site 272942006277 Walker B; other site 272942006278 D-loop; other site 272942006279 H-loop/switch region; other site 272942006280 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 272942006281 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 272942006282 Predicted permeases [General function prediction only]; Region: RarD; COG2962 272942006283 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 272942006284 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 272942006285 substrate binding site [chemical binding]; other site 272942006286 tetramer interface [polypeptide binding]; other site 272942006287 catalytic residue [active] 272942006288 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272942006289 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272942006290 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272942006291 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272942006292 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 272942006293 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942006294 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 272942006295 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 272942006296 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942006297 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942006298 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 272942006299 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 272942006300 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 272942006301 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 272942006302 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...; Region: Hint; cl12032 272942006303 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 272942006304 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 272942006305 G1 box; other site 272942006306 putative GEF interaction site [polypeptide binding]; other site 272942006307 GTP/Mg2+ binding site [chemical binding]; other site 272942006308 Switch I region; other site 272942006309 G2 box; other site 272942006310 G3 box; other site 272942006311 Switch II region; other site 272942006312 G4 box; other site 272942006313 G5 box; other site 272942006314 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 272942006315 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272942006316 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272942006317 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 272942006318 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 272942006319 Int/Topo IB signature motif; other site 272942006320 Phage portal protein; Region: Phage_portal; pfam04860 272942006321 Phage-related protein [Function unknown]; Region: COG4695; cl01923 272942006322 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 272942006323 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 272942006324 Phage capsid family; Region: Phage_capsid; pfam05065 272942006325 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...; Region: HNHc; cl00083 272942006326 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 272942006327 oligomerization interface [polypeptide binding]; other site 272942006328 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 272942006329 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 272942006330 Phage terminase, small subunit; Region: Terminase_4; cl01525 272942006331 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 272942006332 Phage Terminase; Region: Terminase_1; pfam03354 272942006333 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 272942006334 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 272942006335 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 272942006336 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 272942006337 DNA-binding site [nucleotide binding]; DNA binding site 272942006338 RNA-binding motif; other site 272942006339 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 272942006340 DNA-binding site [nucleotide binding]; DNA binding site 272942006341 RNA-binding motif; other site 272942006342 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 272942006343 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272942006344 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 272942006345 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 272942006346 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272942006347 NAD binding site [chemical binding]; other site 272942006348 homotetramer interface [polypeptide binding]; other site 272942006349 homodimer interface [polypeptide binding]; other site 272942006350 substrate binding site [chemical binding]; other site 272942006351 active site 272942006352 LysE type translocator; Region: LysE; cl00565 272942006353 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942006354 hypothetical protein; Provisional; Region: PRK08912 272942006355 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 272942006356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006357 homodimer interface [polypeptide binding]; other site 272942006358 catalytic residue [active] 272942006359 periplasmic folding chaperone; Provisional; Region: PRK10788 272942006360 anthranilate synthase component I; Provisional; Region: PRK13573 272942006361 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272942006362 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272942006363 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 272942006364 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272942006365 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272942006366 glutamine binding [chemical binding]; other site 272942006367 catalytic triad [active] 272942006368 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 272942006369 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272942006370 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272942006371 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 272942006372 active site 272942006373 ribulose/triose binding site [chemical binding]; other site 272942006374 phosphate binding site [ion binding]; other site 272942006375 substrate (anthranilate) binding pocket [chemical binding]; other site 272942006376 product (indole) binding pocket [chemical binding]; other site 272942006377 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...; Region: MoaC_PE; cd01420 272942006378 trimer interface [polypeptide binding]; other site 272942006379 dimer interface [polypeptide binding]; other site 272942006380 putative active site [active] 272942006381 LexA repressor; Validated; Region: PRK00215 272942006382 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942006383 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 (...; Region: S24_LexA-like; cd06529 272942006384 Catalytic site [active] 272942006385 Competence protein; Region: Competence; cl00471 272942006386 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272942006387 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272942006388 HIGH motif; other site 272942006389 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272942006390 active site 272942006391 KMSKS motif; other site 272942006392 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 272942006393 dimer interface [polypeptide binding]; other site 272942006394 Citrate synthase; Region: Citrate_synt; pfam00285 272942006395 active site 272942006396 citrylCoA binding site [chemical binding]; other site 272942006397 NADH binding [chemical binding]; other site 272942006398 cationic pore residues; other site 272942006399 oxalacetate/citrate binding site [chemical binding]; other site 272942006400 coenzyme A binding site [chemical binding]; other site 272942006401 catalytic triad [active] 272942006402 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 272942006403 NnrS protein; Region: NnrS; cl01258 272942006404 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 272942006405 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; cl11391 272942006406 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 272942006407 motif II; other site 272942006408 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 272942006409 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 272942006410 N- and C-terminal domain interface [polypeptide binding]; other site 272942006411 putative active site [active] 272942006412 putative MgATP binding site [chemical binding]; other site 272942006413 catalytic site [active] 272942006414 metal binding site [ion binding]; metal-binding site 272942006415 carbohydrate binding site [chemical binding]; other site 272942006416 putative homodimer interface [polypeptide binding]; other site 272942006417 classical (c) SDRs; Region: SDR_c; cd05233 272942006418 NAD(P) binding site [chemical binding]; other site 272942006419 active site 272942006420 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 272942006421 TM-ABC transporter signature motif; other site 272942006422 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942006423 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942006424 Walker A/P-loop; other site 272942006425 ATP binding site [chemical binding]; other site 272942006426 Q-loop/lid; other site 272942006427 ABC transporter signature motif; other site 272942006428 Walker B; other site 272942006429 D-loop; other site 272942006430 H-loop/switch region; other site 272942006431 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 272942006432 putative ligand binding site [chemical binding]; other site 272942006433 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942006434 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942006435 DNA binding site [nucleotide binding] 272942006436 domain linker motif; other site 272942006437 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 272942006438 dimerization interface [polypeptide binding]; other site 272942006439 ligand binding site [chemical binding]; other site 272942006440 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 272942006441 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272942006442 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 272942006443 Gram-negative bacterial tonB protein; Region: TonB; cl10048 272942006444 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272942006445 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942006446 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272942006447 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 272942006448 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272942006449 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 272942006450 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 272942006451 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; cl12011 272942006452 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 272942006453 cell division protein MraZ; Reviewed; Region: PRK00326 272942006454 MraZ protein; Region: MraZ; pfam02381 272942006455 MraZ protein; Region: MraZ; pfam02381 272942006456 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 272942006457 Walker A motif; other site 272942006458 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 272942006459 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 272942006460 Intracellular septation protein A; Region: IspA; cl01098 272942006461 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272942006462 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 272942006463 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 272942006464 P loop; other site 272942006465 GTP binding site [chemical binding]; other site 272942006466 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 272942006467 Fatty acid desaturase; Region: FA_desaturase; pfam00487 272942006468 Di-iron ligands [ion binding]; other site 272942006469 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272942006470 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 272942006471 generic binding surface I; other site 272942006472 generic binding surface II; other site 272942006473 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 272942006474 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 272942006475 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942006476 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 272942006477 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 272942006478 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 272942006479 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 272942006480 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...; Region: Hint; cl12032 272942006481 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 272942006482 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942006483 active site 272942006484 dimer interface [polypeptide binding]; other site 272942006485 glutathione reductase; Validated; Region: PRK06116 272942006486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942006487 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272942006488 HflK protein; Region: hflK; TIGR01933 272942006489 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 272942006490 FtsH protease regulator HflC; Provisional; Region: PRK11029 272942006491 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 272942006492 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 272942006493 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...; Region: Tryp_SPc; cl00149 272942006494 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 C-...; Region: PDZ_serine_protease; cd00987 272942006495 protein binding site [polypeptide binding]; other site 272942006496 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 C-...; Region: PDZ_serine_protease; cd00987 272942006497 protein binding site [polypeptide binding]; other site 272942006498 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942006499 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 272942006500 catalytic loop [active] 272942006501 iron binding site [ion binding]; other site 272942006502 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 272942006503 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 272942006504 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 272942006505 putative active site [active] 272942006506 putative substrate binding site [chemical binding]; other site 272942006507 putative cosubstrate binding site; other site 272942006508 catalytic site [active] 272942006509 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 272942006510 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 272942006511 active site 272942006512 dimer interface [polypeptide binding]; other site 272942006513 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 272942006514 dimer interface [polypeptide binding]; other site 272942006515 active site 272942006516 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 272942006517 putative active site [active] 272942006518 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 272942006519 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272942006520 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272942006521 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 272942006522 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; cl12011 272942006523 Dehydratase family; Region: ILVD_EDD; cl00340 272942006524 6-phosphogluconate dehydratase; Region: edd; TIGR01196 272942006525 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 272942006526 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272942006527 active site 272942006528 intersubunit interface [polypeptide binding]; other site 272942006529 catalytic residue [active] 272942006530 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 272942006531 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942006532 metal binding triad; other site 272942006533 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272942006534 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942006535 metal binding triad; other site 272942006536 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272942006537 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 272942006538 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 272942006539 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 272942006540 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 272942006541 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 272942006542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942006543 short chain dehydrogenase; Provisional; Region: PRK12939 272942006544 NAD(P) binding site [chemical binding]; other site 272942006545 active site 272942006546 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 272942006547 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 272942006548 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272942006549 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 272942006550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 272942006551 Uncharacterized protein conserved in bacteria (DUF2329); Region: DUF2329; pfam10091 272942006552 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942006553 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 272942006554 classical (c) SDRs; Region: SDR_c; cd05233 272942006555 NAD(P) binding site [chemical binding]; other site 272942006556 active site 272942006557 Survival protein SurE; Region: SurE; cl00448 272942006558 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; cl12011 272942006559 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 272942006560 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 272942006561 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942006562 putative transporter; Validated; Region: PRK03818 272942006563 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 272942006564 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; cl09110 272942006565 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; cl09110 272942006566 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 272942006567 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 272942006568 putative phosphate binding site [ion binding]; other site 272942006569 putative catalytic site [active] 272942006570 active site 272942006571 metal binding site A [ion binding]; metal-binding site 272942006572 DNA binding site [nucleotide binding] 272942006573 putative AP binding site [nucleotide binding]; other site 272942006574 putative metal binding site B [ion binding]; other site 272942006575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942006576 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272942006577 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272942006578 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...; Region: AAA; cd00009 272942006579 Walker A motif; other site 272942006580 ATP binding site [chemical binding]; other site 272942006581 Walker B motif; other site 272942006582 arginine finger; other site 272942006583 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; cl12011 272942006584 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 272942006585 active site 272942006586 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 272942006587 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272942006588 Cytochrome P450; Region: p450; cl12078 272942006589 acyl-CoA synthetase; Validated; Region: PRK05850 272942006590 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942006591 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; cl15259 272942006592 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942006593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942006594 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272942006595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942006596 DNA-binding site [nucleotide binding]; DNA binding site 272942006597 FCD domain; Region: FCD; cl11656 272942006598 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272942006599 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 272942006600 TM-ABC transporter signature motif; other site 272942006601 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 272942006602 TM-ABC transporter signature motif; other site 272942006603 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942006604 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 272942006605 Walker A/P-loop; other site 272942006606 ATP binding site [chemical binding]; other site 272942006607 Q-loop/lid; other site 272942006608 ABC transporter signature motif; other site 272942006609 Walker B; other site 272942006610 D-loop; other site 272942006611 H-loop/switch region; other site 272942006612 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 272942006613 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 272942006614 Walker A/P-loop; other site 272942006615 ATP binding site [chemical binding]; other site 272942006616 Q-loop/lid; other site 272942006617 ABC transporter signature motif; other site 272942006618 Walker B; other site 272942006619 D-loop; other site 272942006620 H-loop/switch region; other site 272942006621 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272942006622 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272942006623 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 272942006624 NAD(P) binding site [chemical binding]; other site 272942006625 catalytic residues [active] 272942006626 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...; Region: TM_PBP2; cd06261 272942006627 dimer interface [polypeptide binding]; other site 272942006628 conserved gate region; other site 272942006629 putative PBP binding loops; other site 272942006630 ABC-ATPase subunit interface; other site 272942006631 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...; Region: TM_PBP2; cd06261 272942006632 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942006633 dimer interface [polypeptide binding]; other site 272942006634 conserved gate region; other site 272942006635 putative PBP binding loops; other site 272942006636 ABC-ATPase subunit interface; other site 272942006637 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272942006638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942006639 Walker A/P-loop; other site 272942006640 ATP binding site [chemical binding]; other site 272942006641 Q-loop/lid; other site 272942006642 ABC transporter signature motif; other site 272942006643 Walker B; other site 272942006644 D-loop; other site 272942006645 H-loop/switch region; other site 272942006646 TOBE domain; Region: TOBE_2; cl01440 272942006647 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942006648 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 272942006649 PAS fold; Region: PAS; pfam00989 272942006650 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272942006651 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942006652 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942006653 LolC/E family; Region: lolCE; TIGR02212 272942006654 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272942006655 FtsX-like permease family; Region: FtsX; pfam02687 272942006656 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 272942006657 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 272942006658 Walker A/P-loop; other site 272942006659 ATP binding site [chemical binding]; other site 272942006660 Q-loop/lid; other site 272942006661 ABC transporter signature motif; other site 272942006662 Walker B; other site 272942006663 D-loop; other site 272942006664 H-loop/switch region; other site 272942006665 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942006666 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942006667 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 272942006668 DNA-binding site [nucleotide binding]; DNA binding site 272942006669 RNA-binding motif; other site 272942006670 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272942006671 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...; Region: TGS_ThrRS_N; cd01667 272942006672 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272942006673 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 272942006674 active site 272942006675 dimer interface [polypeptide binding]; other site 272942006676 motif 1; other site 272942006677 motif 2; other site 272942006678 motif 3; other site 272942006679 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 272942006680 anticodon binding site; other site 272942006681 Surface antigen; Region: Surface_Ag_2; cl01155 272942006682 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942006683 prolyl-tRNA synthetase; Provisional; Region: PRK12325 272942006684 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...; Region: ProRS_core_prok; cd00779 272942006685 dimer interface [polypeptide binding]; other site 272942006686 motif 1; other site 272942006687 active site 272942006688 motif 2; other site 272942006689 motif 3; other site 272942006690 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-...; Region: ProRS_anticodon_short; cd00861 272942006691 anticodon binding site; other site 272942006692 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 272942006693 Protein of unknown function DUF45; Region: DUF45; cl00636 272942006694 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272942006695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942006696 DNA-binding site [nucleotide binding]; DNA binding site 272942006697 FCD domain; Region: FCD; cl11656 272942006698 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...; Region: BFIT_BACH; cd03442 272942006699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272942006700 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 272942006701 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 272942006702 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 272942006703 active site residue [active] 272942006704 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...; Region: GSH_Peroxidase; cd00340 272942006705 catalytic residues [active] 272942006706 dimer interface [polypeptide binding]; other site 272942006707 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272942006708 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...; Region: OM_channels; cl00284 272942006709 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 272942006710 DHH family; Region: DHH; pfam01368 272942006711 DHHA2 domain; Region: DHHA2; pfam02833 272942006712 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...; Region: cpn10; cd00320 272942006713 oligomerisation interface [polypeptide binding]; other site 272942006714 mobile loop; other site 272942006715 roof hairpin; other site 272942006716 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272942006717 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 272942006718 ring oligomerisation interface [polypeptide binding]; other site 272942006719 ATP/Mg binding site [chemical binding]; other site 272942006720 stacking interactions; other site 272942006721 hinge regions; other site 272942006722 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 272942006723 DNA polymerase I; Provisional; Region: PRK05755 272942006724 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272942006725 active site 272942006726 metal binding site 1 [ion binding]; metal-binding site 272942006727 putative 5' ssDNA interaction site; other site 272942006728 metal binding site 3; metal-binding site 272942006729 metal binding site 2 [ion binding]; metal-binding site 272942006730 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272942006731 putative DNA binding site [nucleotide binding]; other site 272942006732 putative metal binding site [ion binding]; other site 272942006733 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 272942006734 active site 272942006735 catalytic site [active] 272942006736 substrate binding site [chemical binding]; other site 272942006737 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272942006738 active site 272942006739 DNA binding site [nucleotide binding] 272942006740 catalytic site [active] 272942006741 Zinc-finger domain; Region: zf-CHCC; cl01821 272942006742 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 272942006743 nucleotide binding site/active site [active] 272942006744 HIT family signature motif; other site 272942006745 catalytic residue [active] 272942006746 Core-2/I-Branching enzyme; Region: Branch; pfam02485 272942006747 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 272942006748 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; cl12011 272942006749 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 272942006750 adenosine kinase; Provisional; Region: PTZ00247 272942006751 substrate binding site [chemical binding]; other site 272942006752 ATP binding site [chemical binding]; other site 272942006753 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272942006754 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272942006755 minor groove reading motif; other site 272942006756 helix-hairpin-helix signature motif; other site 272942006757 substrate binding pocket [chemical binding]; other site 272942006758 active site 272942006759 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272942006760 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 272942006761 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 272942006762 DNA binding site [nucleotide binding] 272942006763 active site 272942006764 putative outer membrane lipoprotein; Provisional; Region: PRK10510 272942006765 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942006766 ligand binding site [chemical binding]; other site 272942006767 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 272942006768 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942006769 DNA-binding site [nucleotide binding]; DNA binding site 272942006770 FCD domain; Region: FCD; cl11656 272942006771 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 272942006772 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942006773 ligand binding site [chemical binding]; other site 272942006774 flexible hinge region; other site 272942006775 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 272942006776 putative switch regulator; other site 272942006777 non-specific DNA interactions [nucleotide binding]; other site 272942006778 DNA binding site [nucleotide binding] 272942006779 sequence specific DNA binding site [nucleotide binding]; other site 272942006780 putative cAMP binding site [chemical binding]; other site 272942006781 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 272942006782 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 272942006783 FeS/SAM binding site; other site 272942006784 HemN C-terminal region; Region: HemN_C; pfam06969 272942006785 GTPase RsgA; Reviewed; Region: PRK01889 272942006786 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 272942006787 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272942006788 GTP/Mg2+ binding site [chemical binding]; other site 272942006789 G4 box; other site 272942006790 G5 box; other site 272942006791 G1 box; other site 272942006792 Switch I region; other site 272942006793 G2 box; other site 272942006794 G3 box; other site 272942006795 Switch II region; other site 272942006796 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272942006797 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 272942006798 putative ADP-binding pocket [chemical binding]; other site 272942006799 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 272942006800 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 272942006801 Walker A/P-loop; other site 272942006802 ATP binding site [chemical binding]; other site 272942006803 Q-loop/lid; other site 272942006804 ABC transporter signature motif; other site 272942006805 Walker B; other site 272942006806 D-loop; other site 272942006807 H-loop/switch region; other site 272942006808 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272942006809 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 272942006810 Walker A/P-loop; other site 272942006811 ATP binding site [chemical binding]; other site 272942006812 Q-loop/lid; other site 272942006813 ABC transporter signature motif; other site 272942006814 Walker B; other site 272942006815 D-loop; other site 272942006816 H-loop/switch region; other site 272942006817 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 272942006818 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...; Region: TM_PBP2; cd06261 272942006819 dimer interface [polypeptide binding]; other site 272942006820 conserved gate region; other site 272942006821 putative PBP binding loops; other site 272942006822 ABC-ATPase subunit interface; other site 272942006823 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272942006824 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...; Region: TM_PBP2; cd06261 272942006825 dimer interface [polypeptide binding]; other site 272942006826 conserved gate region; other site 272942006827 putative PBP binding loops; other site 272942006828 ABC-ATPase subunit interface; other site 272942006829 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272942006830 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 272942006831 Cytochrome c; Region: Cytochrom_C; cl11414 272942006832 prephenate dehydratase; Provisional; Region: PRK11899 272942006833 Prephenate dehydratase; Region: PDT; pfam00800 272942006834 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 272942006835 putative L-Phe binding site [chemical binding]; other site 272942006836 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 272942006837 hydrophobic ligand binding site; other site 272942006838 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 272942006839 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 272942006840 putative NADH binding site [chemical binding]; other site 272942006841 putative active site [active] 272942006842 nudix motif; other site 272942006843 putative metal binding site [ion binding]; other site 272942006844 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 272942006845 nucleoside/Zn binding site; other site 272942006846 dimer interface [polypeptide binding]; other site 272942006847 catalytic motif [active] 272942006848 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272942006849 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 272942006850 RNA binding surface [nucleotide binding]; other site 272942006851 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 272942006852 active site 272942006853 tegument protein VP11/12; Provisional; Region: PHA03321 272942006854 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 272942006855 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 272942006856 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 272942006857 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 272942006858 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 272942006859 putative substrate binding site [chemical binding]; other site 272942006860 putative ATP binding site [chemical binding]; other site 272942006861 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...; Region: Dtyr_deacylase; cd00563 272942006862 putative active site [active] 272942006863 dimerization interface [polypeptide binding]; other site 272942006864 putative tRNAtyr binding site [nucleotide binding]; other site 272942006865 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 272942006866 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 272942006867 ATP binding site [chemical binding]; other site 272942006868 Mg++ binding site [ion binding]; other site 272942006869 motif III; other site 272942006870 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 272942006871 nucleotide binding region [chemical binding]; other site 272942006872 ATP-binding site [chemical binding]; other site 272942006873 Thymidine kinase; Region: TK; cl00631 272942006874 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 272942006875 catalytic residues [active] 272942006876 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; cl12011 272942006877 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 272942006878 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272942006879 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 272942006880 FG-GAP repeat; Region: FG-GAP; cl15299 272942006881 NMT1/THI5 like; Region: NMT1; pfam09084 272942006882 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...; Region: TM_PBP2; cl00427 272942006883 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272942006884 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...; Region: TM_PBP2; cd06261 272942006885 dimer interface [polypeptide binding]; other site 272942006886 conserved gate region; other site 272942006887 putative PBP binding loops; other site 272942006888 ABC-ATPase subunit interface; other site 272942006889 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272942006890 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 272942006891 Walker A/P-loop; other site 272942006892 ATP binding site [chemical binding]; other site 272942006893 Q-loop/lid; other site 272942006894 ABC transporter signature motif; other site 272942006895 Walker B; other site 272942006896 D-loop; other site 272942006897 H-loop/switch region; other site 272942006898 phenylhydantoinase; Validated; Region: PRK08323 272942006899 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...; Region: D-HYD; cd01314 272942006900 tetramer interface [polypeptide binding]; other site 272942006901 active site 272942006902 allantoate amidohydrolase; Reviewed; Region: PRK12893 272942006903 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 272942006904 active site 272942006905 metal binding site [ion binding]; metal-binding site 272942006906 dimer interface [polypeptide binding]; other site 272942006907 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942006908 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 272942006909 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 272942006910 homodimer interface [polypeptide binding]; other site 272942006911 active site 272942006912 FMN binding site [chemical binding]; other site 272942006913 substrate binding site [chemical binding]; other site 272942006914 4Fe-4S binding domain; Region: Fer4; cl02805 272942006915 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 272942006916 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 272942006917 PUCC protein; Region: PUCC; pfam03209 272942006918 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 solute-...; Region: ABC_CysA_sulfate_importer; cd03296 272942006919 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 272942006920 Walker A/P-loop; other site 272942006921 ATP binding site [chemical binding]; other site 272942006922 Q-loop/lid; other site 272942006923 ABC transporter signature motif; other site 272942006924 Walker B; other site 272942006925 D-loop; other site 272942006926 H-loop/switch region; other site 272942006927 sulfate transport protein; Provisional; Region: cysT; CHL00187 272942006928 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...; Region: TM_PBP2; cd06261 272942006929 dimer interface [polypeptide binding]; other site 272942006930 conserved gate region; other site 272942006931 putative PBP binding loops; other site 272942006932 ABC-ATPase subunit interface; other site 272942006933 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272942006934 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...; Region: TM_PBP2; cd06261 272942006935 dimer interface [polypeptide binding]; other site 272942006936 conserved gate region; other site 272942006937 putative PBP binding loops; other site 272942006938 ABC-ATPase subunit interface; other site 272942006939 cysteine synthases; Region: cysKM; TIGR01136 272942006940 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 272942006941 dimer interface [polypeptide binding]; other site 272942006942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006943 catalytic residue [active] 272942006944 tryptophan synthase, beta chain; Region: PLN02618 272942006945 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 272942006946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942006947 catalytic residue [active] 272942006948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942006949 metal binding site [ion binding]; metal-binding site 272942006950 active site 272942006951 I-site; other site 272942006952 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 272942006953 PAS fold; Region: PAS_3; pfam08447 272942006954 PAS fold; Region: PAS_3; pfam08447 272942006955 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272942006956 PAS domain S-box; Region: sensory_box; TIGR00229 272942006957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942006958 metal binding site [ion binding]; metal-binding site 272942006959 active site 272942006960 I-site; other site 272942006961 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 272942006962 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 272942006963 P-loop; other site 272942006964 active site 272942006965 phosphorylation site [posttranslational modification] 272942006966 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 272942006967 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 272942006968 P-loop; other site 272942006969 active site 272942006970 phosphorylation site [posttranslational modification] 272942006971 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 272942006972 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 272942006973 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 272942006974 putative substrate binding site [chemical binding]; other site 272942006975 putative ATP binding site [chemical binding]; other site 272942006976 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 272942006977 active site 272942006978 phosphorylation site [posttranslational modification] 272942006979 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 272942006980 dimerization domain swap beta strand [polypeptide binding]; other site 272942006981 regulatory protein interface [polypeptide binding]; other site 272942006982 active site 272942006983 regulatory phosphorylation site [posttranslational modification]; other site 272942006984 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 272942006985 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272942006986 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272942006987 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 272942006988 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272942006989 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 272942006990 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942006991 PAS fold; Region: PAS_7; pfam12860 272942006992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272942006993 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 trans-...; Region: HisKA; cd00082 272942006994 dimer interface [polypeptide binding]; other site 272942006995 phosphorylation site [posttranslational modification] 272942006996 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 272942006997 ATP binding site [chemical binding]; other site 272942006998 Mg2+ binding site [ion binding]; other site 272942006999 G-X-G motif; other site 272942007000 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 272942007001 active site 272942007002 phosphorylation site [posttranslational modification] 272942007003 intermolecular recognition site; other site 272942007004 dimerization interface [polypeptide binding]; other site 272942007005 osmolarity response regulator; Provisional; Region: ompR; PRK09468 272942007006 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 272942007007 active site 272942007008 phosphorylation site [posttranslational modification] 272942007009 intermolecular recognition site; other site 272942007010 dimerization interface [polypeptide binding]; other site 272942007011 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...; Region: trans_reg_C; cd00383 272942007012 DNA binding site [nucleotide binding] 272942007013 Domain of unknown function (DUF329); Region: DUF329; cl01144 272942007014 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 272942007015 RNA binding site [nucleotide binding]; other site 272942007016 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 272942007017 Maf-like protein; Region: Maf; pfam02545 272942007018 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 272942007019 active site 272942007020 dimer interface [polypeptide binding]; other site 272942007021 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 272942007022 rRNA binding site [nucleotide binding]; other site 272942007023 predicted 30S ribosome binding site; other site 272942007024 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 272942007025 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272942007026 putative active site [active] 272942007027 catalytic triad [active] 272942007028 putative dimer interface [polypeptide binding]; other site 272942007029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942007030 Coenzyme A binding pocket [chemical binding]; other site 272942007031 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 272942007032 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 272942007033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007034 NAD(P) binding site [chemical binding]; other site 272942007035 active site 272942007036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007037 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942007038 Active site [active] 272942007039 Uncharacterised protein family (UPF0262); Region: UPF0262; cl11489 272942007040 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 272942007041 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 272942007042 NAD binding site [chemical binding]; other site 272942007043 dimerization interface [polypeptide binding]; other site 272942007044 product binding site; other site 272942007045 substrate binding site [chemical binding]; other site 272942007046 zinc binding site [ion binding]; other site 272942007047 catalytic residues [active] 272942007048 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 272942007049 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 272942007050 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 272942007051 hinge; other site 272942007052 active site 272942007053 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons...; Region: RT_like; cl02808 272942007054 active site 272942007055 NTP binding site [chemical binding]; other site 272942007056 nucleic acid binding site [nucleotide binding]; other site 272942007057 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 272942007058 catalytic residues [active] 272942007059 catalytic nucleophile [active] 272942007060 Recombinase; Region: Recombinase; pfam07508 272942007061 Prophage antirepressor [Transcription]; Region: COG3617 272942007062 BRO family, N-terminal domain; Region: Bro-N; cl10591 272942007063 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 272942007064 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 272942007065 DNA binding site [nucleotide binding] 272942007066 Int/Topo IB signature motif; other site 272942007067 active site 272942007068 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 272942007069 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272942007070 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272942007071 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942007072 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942007073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 272942007074 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 272942007075 ATP binding site [chemical binding]; other site 272942007076 Mg2+ binding site [ion binding]; other site 272942007077 G-X-G motif; other site 272942007078 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272942007079 Found in ATP-dependent protease La (LON); Region: LON; smart00464 272942007080 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...; Region: AAA; cd00009 272942007081 Walker A motif; other site 272942007082 ATP binding site [chemical binding]; other site 272942007083 Walker B motif; other site 272942007084 arginine finger; other site 272942007085 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272942007086 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272942007087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007088 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 272942007089 ligand binding site [chemical binding]; other site 272942007090 flexible hinge region; other site 272942007091 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 272942007092 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 272942007093 substrate binding site [chemical binding]; other site 272942007094 oxyanion hole (OAH) forming residues; other site 272942007095 trimer interface [polypeptide binding]; other site 272942007096 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 272942007097 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272942007098 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272942007099 Sodium:solute symporter family; Region: SSF; cl00456 272942007100 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942007101 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 trans-...; Region: HisKA; cd00082 272942007102 dimer interface [polypeptide binding]; other site 272942007103 phosphorylation site [posttranslational modification] 272942007104 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 272942007105 ATP binding site [chemical binding]; other site 272942007106 Mg2+ binding site [ion binding]; other site 272942007107 G-X-G motif; other site 272942007108 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 272942007109 active site 272942007110 phosphorylation site [posttranslational modification] 272942007111 intermolecular recognition site; other site 272942007112 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 272942007113 non-specific DNA binding site [nucleotide binding]; other site 272942007114 salt bridge; other site 272942007115 sequence-specific DNA binding site [nucleotide binding]; other site 272942007116 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942007117 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 272942007118 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 272942007119 inhibitor-cofactor binding pocket; inhibition site 272942007120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007121 catalytic residue [active] 272942007122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942007123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942007124 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 272942007125 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272942007126 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 272942007127 carboxyltransferase (CT) interaction site; other site 272942007128 biotinylation site [posttranslational modification]; other site 272942007129 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 272942007130 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272942007131 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942007132 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272942007133 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; cl12011 272942007134 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 272942007135 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 272942007136 mce related protein; Region: MCE; pfam02470 272942007137 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 272942007138 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272942007139 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 272942007140 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...; Region: AAA; cd00009 272942007141 Walker A motif; other site 272942007142 ATP binding site [chemical binding]; other site 272942007143 Walker B motif; other site 272942007144 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272942007145 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272942007146 oligomer interface [polypeptide binding]; other site 272942007147 active site residues [active] 272942007148 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272942007149 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942007150 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942007151 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942007152 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 272942007153 active site 272942007154 homotetramer interface [polypeptide binding]; other site 272942007155 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 272942007156 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 272942007157 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 272942007158 hypothetical protein; Provisional; Region: PRK11171 272942007159 Cupin domain; Region: Cupin_2; cl09118 272942007160 Cupin domain; Region: Cupin_2; cl09118 272942007161 MOFRL family; Region: MOFRL; cl01013 272942007162 Protein of unknown function (DUF1498); Region: DUF1498; cl01576 272942007163 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272942007164 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 272942007165 active site 272942007166 metal binding site [ion binding]; metal-binding site 272942007167 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272942007168 Protein of unknown function (DUF952); Region: DUF952; cl01393 272942007169 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...; Region: DHOD_2_like; cd04738 272942007170 quinone interaction residues [chemical binding]; other site 272942007171 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 272942007172 active site 272942007173 catalytic residues [active] 272942007174 FMN binding site [chemical binding]; other site 272942007175 substrate binding site [chemical binding]; other site 272942007176 acetyl-CoA synthetase; Provisional; Region: PRK00174 272942007177 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 272942007178 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942007179 putative transporter; Provisional; Region: PRK11660 272942007180 Sulfate transporter family; Region: Sulfate_transp; cl00967 272942007181 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 272942007182 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272942007183 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 272942007184 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942007185 active site 272942007186 nucleotide binding site [chemical binding]; other site 272942007187 HIGH motif; other site 272942007188 KMSKS motif; other site 272942007189 tellurite resistance protein terB; Region: terB; cd07176 272942007190 putative metal binding site [ion binding]; other site 272942007191 Cysteine-rich small domain; Region: zf-like; cl00946 272942007192 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272942007193 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 272942007194 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272942007195 active site 272942007196 (T/H)XGH motif; other site 272942007197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942007198 metal binding site [ion binding]; metal-binding site 272942007199 active site 272942007200 I-site; other site 272942007201 Heme NO binding; Region: HNOB; cl15268 272942007202 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942007203 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 272942007204 motif II; other site 272942007205 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; cl11391 272942007206 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 272942007207 response regulator PleD; Reviewed; Region: pleD; PRK09581 272942007208 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 272942007209 active site 272942007210 phosphorylation site [posttranslational modification] 272942007211 intermolecular recognition site; other site 272942007212 dimerization interface [polypeptide binding]; other site 272942007213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942007214 metal binding site [ion binding]; metal-binding site 272942007215 active site 272942007216 I-site; other site 272942007217 RNA polymerase sigma factor; Provisional; Region: PRK12524 272942007218 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942007219 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942007220 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 272942007221 Ca2+ binding site [ion binding]; other site 272942007222 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...; Region: Nudix_Hydrolase; cl00447 272942007223 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 272942007224 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272942007225 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...; Region: Aldo_ket_red; cd06660 272942007226 active site 272942007227 catalytic tetrad [active] 272942007228 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 272942007229 substrate-cofactor binding pocket; other site 272942007230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007231 aminodeoxychorismate synthase; Provisional; Region: PRK07508 272942007232 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272942007233 CoA-transferase family III; Region: CoA_transf_3; cl00778 272942007234 Protein of unknown function (DUF461); Region: DUF461; cl01071 272942007235 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 272942007236 Proline dehydrogenase; Region: Pro_dh; cl03282 272942007237 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272942007238 NAD(P) binding site [chemical binding]; other site 272942007239 catalytic residues [active] 272942007240 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942007241 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007242 selenophosphate synthetase; Provisional; Region: PRK00943 272942007243 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 272942007244 dimerization interface [polypeptide binding]; other site 272942007245 putative ATP binding site [chemical binding]; other site 272942007246 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 272942007247 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 272942007248 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 272942007249 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 272942007250 N- and C-terminal domain interface [polypeptide binding]; other site 272942007251 active site 272942007252 MgATP binding site [chemical binding]; other site 272942007253 catalytic site [active] 272942007254 metal binding site [ion binding]; metal-binding site 272942007255 carbohydrate binding site [chemical binding]; other site 272942007256 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 272942007257 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 272942007258 PYR/PP interface [polypeptide binding]; other site 272942007259 dimer interface [polypeptide binding]; other site 272942007260 TPP binding site [chemical binding]; other site 272942007261 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942007262 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 272942007263 TPP-binding site [chemical binding]; other site 272942007264 dimer interface [polypeptide binding]; other site 272942007265 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 272942007266 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of...; Region: L-fuc_L-ara-isomerases; cd00578 272942007267 hexamer (dimer of trimers) interface [polypeptide binding]; other site 272942007268 substrate binding site [chemical binding]; other site 272942007269 trimer interface [polypeptide binding]; other site 272942007270 Mn binding site [ion binding]; other site 272942007271 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 272942007272 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 272942007273 ligand binding site [chemical binding]; other site 272942007274 dimerization interface [polypeptide binding]; other site 272942007275 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 272942007276 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272942007277 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...; Region: ABC_Carb_Monos_I; cd03216 272942007278 Walker A/P-loop; other site 272942007279 ATP binding site [chemical binding]; other site 272942007280 Q-loop/lid; other site 272942007281 ABC transporter signature motif; other site 272942007282 Walker B; other site 272942007283 D-loop; other site 272942007284 H-loop/switch region; other site 272942007285 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 272942007286 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 272942007287 TM-ABC transporter signature motif; other site 272942007288 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272942007289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007290 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 272942007291 short chain dehydrogenase; Validated; Region: PRK08324 272942007292 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 272942007293 active site 272942007294 Zn2+ binding site [ion binding]; other site 272942007295 intersubunit interface [polypeptide binding]; other site 272942007296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007297 NAD(P) binding site [chemical binding]; other site 272942007298 active site 272942007299 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272942007300 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007301 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942007302 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 272942007303 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942007304 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942007305 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 272942007306 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272942007307 NAD binding site [chemical binding]; other site 272942007308 homotetramer interface [polypeptide binding]; other site 272942007309 homodimer interface [polypeptide binding]; other site 272942007310 substrate binding site [chemical binding]; other site 272942007311 active site 272942007312 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 272942007313 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 272942007314 dimer interface [polypeptide binding]; other site 272942007315 active site 272942007316 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 272942007317 active site 1 [active] 272942007318 dimer interface [polypeptide binding]; other site 272942007319 active site 2 [active] 272942007320 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272942007321 metal binding site 2 [ion binding]; metal-binding site 272942007322 putative DNA binding helix; other site 272942007323 metal binding site 1 [ion binding]; metal-binding site 272942007324 dimer interface [polypeptide binding]; other site 272942007325 structural Zn2+ binding site [ion binding]; other site 272942007326 elongation factor P; Validated; Region: PRK00529 272942007327 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272942007328 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 272942007329 RNA binding site [nucleotide binding]; other site 272942007330 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 272942007331 RNA binding site [nucleotide binding]; other site 272942007332 lysyl-tRNA synthetase-like protein GenX; Region: genX; TIGR00462 272942007333 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...; Region: class_II_aaRS-like_core; cl00268 272942007334 motif 1; other site 272942007335 dimer interface [polypeptide binding]; other site 272942007336 active site 272942007337 motif 2; other site 272942007338 motif 3; other site 272942007339 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 272942007340 Beta-lactamase; Region: Beta-lactamase; cl01009 272942007341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007342 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 272942007343 hypothetical protein; Validated; Region: PRK07682 272942007344 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 272942007345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007346 homodimer interface [polypeptide binding]; other site 272942007347 catalytic residue [active] 272942007348 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272942007349 multidrug efflux protein; Reviewed; Region: PRK01766 272942007350 MatE; Region: MatE; cl10513 272942007351 MatE; Region: MatE; cl10513 272942007352 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 272942007353 Cytochrome C'; Region: Cytochrom_C_2; cl01610 272942007354 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; cl12011 272942007355 Uncharacterized conserved protein [Function unknown]; Region: COG2326 272942007356 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 272942007357 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272942007358 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...; Region: GST_N_GTT1_like; cd03046 272942007359 putative C-terminal domain interface [polypeptide binding]; other site 272942007360 putative GSH binding site (G-site) [chemical binding]; other site 272942007361 putative dimer interface [polypeptide binding]; other site 272942007362 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272942007363 N-terminal domain interface [polypeptide binding]; other site 272942007364 dimer interface [polypeptide binding]; other site 272942007365 substrate binding pocket (H-site) [chemical binding]; other site 272942007366 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272942007367 RF-1 domain; Region: RF-1; cl02875 272942007368 RF-1 domain; Region: RF-1; cl02875 272942007369 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 272942007370 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 272942007371 S-adenosylmethionine binding site [chemical binding]; other site 272942007372 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; cl12011 272942007373 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 272942007374 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 272942007375 SurA N-terminal domain; Region: SurA_N; pfam09312 272942007376 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272942007377 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 272942007378 Organic solvent tolerance protein; Region: OstA_C; pfam04453 272942007379 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 272942007380 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272942007381 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 272942007382 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272942007383 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...; Region: Peptidase_M17; cd00433 272942007384 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272942007385 interface (dimer of trimers) [polypeptide binding]; other site 272942007386 Substrate-binding/catalytic site; other site 272942007387 Zn-binding sites [ion binding]; other site 272942007388 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 272942007389 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 272942007390 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 272942007391 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 272942007392 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...; Region: TM_PBP2; cd06261 272942007393 dimer interface [polypeptide binding]; other site 272942007394 conserved gate region; other site 272942007395 putative PBP binding loops; other site 272942007396 ABC-ATPase subunit interface; other site 272942007397 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...; Region: TM_PBP2; cl00427 272942007398 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 272942007399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007400 Walker A/P-loop; other site 272942007401 ATP binding site [chemical binding]; other site 272942007402 Q-loop/lid; other site 272942007403 ABC transporter signature motif; other site 272942007404 Walker B; other site 272942007405 D-loop; other site 272942007406 H-loop/switch region; other site 272942007407 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 272942007408 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 272942007409 Cytochrome C'; Region: Cytochrom_C_2; cl01610 272942007410 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 272942007411 NlpC/P60 family; Region: NLPC_P60; cl11438 272942007412 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 272942007413 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...; Region: Peptidase_M17; cd00433 272942007414 interface (dimer of trimers) [polypeptide binding]; other site 272942007415 Substrate-binding/catalytic site; other site 272942007416 Zn-binding sites [ion binding]; other site 272942007417 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 272942007418 active site clefts [active] 272942007419 zinc binding site [ion binding]; other site 272942007420 dimer interface [polypeptide binding]; other site 272942007421 conserved hypothetical protein; Region: TIGR02231 272942007422 conserved hypothetical protein; Region: TIGR02231 272942007423 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 272942007424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007425 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 272942007426 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 272942007427 LysE type translocator; Region: LysE; cl00565 272942007428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007429 ATP binding site [chemical binding]; other site 272942007430 putative Mg++ binding site [ion binding]; other site 272942007431 Z1 domain; Region: Z1; pfam10593 272942007432 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 272942007433 ATP binding site [chemical binding]; other site 272942007434 Mg2+ binding site [ion binding]; other site 272942007435 G-X-G motif; other site 272942007436 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272942007437 cofactor binding site; other site 272942007438 DNA binding site [nucleotide binding] 272942007439 substrate interaction site [chemical binding]; other site 272942007440 ParB-like partition proteins; Region: parB_part; TIGR00180 272942007441 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 272942007442 catalytic residues [active] 272942007443 catalytic nucleophile [active] 272942007444 Presynaptic Site I dimer interface [polypeptide binding]; other site 272942007445 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272942007446 Synaptic Flat tetramer interface [polypeptide binding]; other site 272942007447 Synaptic Site I dimer interface [polypeptide binding]; other site 272942007448 DNA binding site [nucleotide binding] 272942007449 Recombinase; Region: Recombinase; pfam07508 272942007450 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 272942007451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007452 DNA binding site [nucleotide binding] 272942007453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007455 Walker A motif; other site 272942007456 Walker A/P-loop; other site 272942007457 ATP binding site [chemical binding]; other site 272942007458 ATP binding site [chemical binding]; other site 272942007459 Q-loop/lid; other site 272942007460 ABC transporter signature motif; other site 272942007461 Walker B; other site 272942007462 D-loop; other site 272942007463 H-loop/switch region; other site 272942007464 RecD/TraA family; Region: recD_rel; TIGR01448 272942007465 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 272942007466 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 272942007467 Virulence-associated protein E; Region: VirE; pfam05272 272942007468 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 272942007469 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 272942007470 potential frameshift: common BLAST hit: gi|209883964|ref|YP_002287821.1| ParB domain protein nuclease 272942007471 ParB-like nuclease domain; Region: ParBc; cl02129 272942007472 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 272942007473 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; cl12011 272942007474 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; cl12011 272942007475 cofactor binding site; other site 272942007476 DNA binding site [nucleotide binding] 272942007477 substrate interaction site [chemical binding]; other site 272942007478 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 272942007479 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942007480 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942007481 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272942007482 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 272942007483 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 272942007484 putative metal binding site [ion binding]; other site 272942007485 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 272942007486 amidase catalytic site [active] 272942007487 Zn binding residues [ion binding]; other site 272942007488 substrate binding site [chemical binding]; other site 272942007489 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272942007490 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; cl11426 272942007491 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 272942007492 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942007493 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 272942007494 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...; Region: AAA; cd00009 272942007495 Walker A motif; other site 272942007496 ATP binding site [chemical binding]; other site 272942007497 Walker B motif; other site 272942007498 arginine finger; other site 272942007499 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 272942007500 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 272942007501 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 272942007502 recombination protein RecR; Reviewed; Region: recR; PRK00076 272942007503 RecR protein; Region: RecR; pfam02132 272942007504 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 272942007505 putative active site [active] 272942007506 putative metal-binding site [ion binding]; other site 272942007507 tetramer interface [polypeptide binding]; other site 272942007508 TfoX N-terminal domain; Region: TfoX_N; cl01167 272942007509 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 272942007510 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272942007511 C-terminal domain interface [polypeptide binding]; other site 272942007512 GSH binding site (G-site) [chemical binding]; other site 272942007513 dimer interface [polypeptide binding]; other site 272942007514 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 272942007515 N-terminal domain interface [polypeptide binding]; other site 272942007516 dimer interface [polypeptide binding]; other site 272942007517 substrate binding pocket (H-site) [chemical binding]; other site 272942007518 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 272942007519 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 272942007520 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 272942007521 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 272942007522 homodimer interface [polypeptide binding]; other site 272942007523 substrate-cofactor binding pocket; other site 272942007524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007525 catalytic residue [active] 272942007526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007527 osmolarity response regulator; Provisional; Region: ompR; PRK09468 272942007528 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 272942007529 active site 272942007530 phosphorylation site [posttranslational modification] 272942007531 intermolecular recognition site; other site 272942007532 dimerization interface [polypeptide binding]; other site 272942007533 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...; Region: trans_reg_C; cd00383 272942007534 DNA binding site [nucleotide binding] 272942007535 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 272942007536 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 272942007537 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 272942007538 [2Fe-2S] cluster binding site [ion binding]; other site 272942007539 cytochrome b; Provisional; Region: CYTB; MTH00191 272942007540 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 272942007541 intrachain domain interface; other site 272942007542 interchain domain interface [polypeptide binding]; other site 272942007543 heme bH binding site [chemical binding]; other site 272942007544 Qi binding site; other site 272942007545 heme bL binding site [chemical binding]; other site 272942007546 Qo binding site; other site 272942007547 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; cd00290 272942007548 interchain domain interface [polypeptide binding]; other site 272942007549 intrachain domain interface; other site 272942007550 Qi binding site; other site 272942007551 Qo binding site; other site 272942007552 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 272942007553 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942007554 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942007555 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 272942007556 putative metal binding site [ion binding]; other site 272942007557 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 272942007558 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; Region: ABC_HisP_GlnQ_permeases; cd03262 272942007559 Walker A/P-loop; other site 272942007560 ATP binding site [chemical binding]; other site 272942007561 Q-loop/lid; other site 272942007562 ABC transporter signature motif; other site 272942007563 Walker B; other site 272942007564 D-loop; other site 272942007565 H-loop/switch region; other site 272942007566 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272942007567 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...; Region: PBPb; cd00134 272942007568 substrate binding pocket [chemical binding]; other site 272942007569 membrane-bound complex binding site; other site 272942007570 hinge residues; other site 272942007571 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942007572 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...; Region: TM_PBP2; cd06261 272942007573 ABC-ATPase subunit interface; other site 272942007574 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...; Region: TM_PBP2; cd06261 272942007575 dimer interface [polypeptide binding]; other site 272942007576 conserved gate region; other site 272942007577 putative PBP binding loops; other site 272942007578 ABC-ATPase subunit interface; other site 272942007579 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942007580 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942007581 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 272942007582 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 272942007583 catalytic triad [active] 272942007584 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 272942007585 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272942007586 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942007587 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942007588 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 272942007589 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942007590 catalytic residue [active] 272942007591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007592 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 272942007593 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 272942007594 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272942007595 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 272942007596 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 272942007597 homodimer interface [polypeptide binding]; other site 272942007598 substrate-cofactor binding pocket; other site 272942007599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007600 catalytic residue [active] 272942007601 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 272942007602 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272942007603 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 272942007604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007605 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 272942007606 Ferredoxin [Energy production and conversion]; Region: COG1146 272942007607 4Fe-4S binding domain; Region: Fer4; cl02805 272942007608 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 272942007609 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 272942007610 RNA binding surface [nucleotide binding]; other site 272942007611 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 272942007612 nucleotide binding region [chemical binding]; other site 272942007613 Superfamily II helicase [General function prediction only]; Region: COG1204 272942007614 ATP-binding site [chemical binding]; other site 272942007615 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 272942007616 binding surface 272942007617 TPR motif; other site 272942007618 SCP-2 sterol transfer family; Region: SCP2; cl01225 272942007619 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 272942007620 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 272942007621 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 272942007622 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings...; Region: proteasome_beta_bacterial; cd03765 272942007623 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272942007624 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272942007625 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 272942007626 Uncharacterized conserved protein [Function unknown]; Region: COG2308 272942007627 Domain of unknown function (DUF404); Region: DUF404; pfam04169 272942007628 Domain of unknown function (DUF407); Region: DUF407; pfam04174 272942007629 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 272942007630 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 272942007631 active site 272942007632 Zn binding site [ion binding]; other site 272942007633 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 272942007634 active site 272942007635 dimer interface [polypeptide binding]; other site 272942007636 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 272942007637 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 272942007638 Uncharacterized conserved protein [Function unknown]; Region: COG1565 272942007639 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 272942007640 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 272942007641 Membrane fusogenic activity; Region: BMFP; cl01115 272942007642 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 272942007643 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 272942007644 active site 272942007645 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 272942007646 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272942007647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942007648 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...; Region: Sigma70_r4; cd06171 272942007649 DNA binding residues [nucleotide binding] 272942007650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007651 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272942007652 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942007653 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 272942007654 putative DNA binding site [nucleotide binding]; other site 272942007655 putative Zn2+ binding site [ion binding]; other site 272942007656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942007657 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272942007658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942007659 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 272942007660 ATP-sulfurylase; Region: ATPS; cd00517 272942007661 active site 272942007662 HXXH motif; other site 272942007663 flexible loop; other site 272942007664 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...; Region: APSK; cd02027 272942007665 ligand-binding site [chemical binding]; other site 272942007666 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 272942007667 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein...; Region: ACD_IbpA-B_like; cd06470 272942007668 putative dimer interface [polypeptide binding]; other site 272942007669 AIR carboxylase; Region: AIRC; cl00310 272942007670 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 272942007671 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272942007672 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 272942007673 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 272942007674 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942007675 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 272942007676 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 1,2-; Region: DsbA_HCCA_Iso; cd03022 272942007677 putative catalytic residue [active] 272942007678 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942007679 fumarate hydratase; Reviewed; Region: fumC; PRK00485 272942007680 Class II fumarases; Region: Fumarase_classII; cd01362 272942007681 active site 272942007682 tetramer interface [polypeptide binding]; other site 272942007683 Stringent starvation protein B; Region: SspB; cl01120 272942007684 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272942007685 Domain of unknown function DUF21; Region: DUF21; pfam01595 272942007686 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 272942007687 Transporter associated domain; Region: CorC_HlyC; cl08393 272942007688 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 272942007689 putative acyl-acceptor binding pocket; other site 272942007690 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 272942007691 regulatory protein interface [polypeptide binding]; other site 272942007692 active site 272942007693 regulatory phosphorylation site [posttranslational modification]; other site 272942007694 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...; Region: PTS_IIA_man; cl00025 272942007695 active pocket/dimerization site; other site 272942007696 active site 272942007697 phosphorylation site [posttranslational modification] 272942007698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007699 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-...; Region: HprK_C; cd01918 272942007700 Hpr binding site; other site 272942007701 active site 272942007702 homohexamer subunit interaction site [polypeptide binding]; other site 272942007703 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272942007704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942007705 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942007706 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 trans-...; Region: HisKA; cd00082 272942007707 dimer interface [polypeptide binding]; other site 272942007708 phosphorylation site [posttranslational modification] 272942007709 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 272942007710 ATP binding site [chemical binding]; other site 272942007711 Mg2+ binding site [ion binding]; other site 272942007712 G-X-G motif; other site 272942007713 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 272942007714 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 272942007715 active site 272942007716 phosphorylation site [posttranslational modification] 272942007717 intermolecular recognition site; other site 272942007718 dimerization interface [polypeptide binding]; other site 272942007719 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...; Region: trans_reg_C; cd00383 272942007720 DNA binding site [nucleotide binding] 272942007721 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_ATP; cd00484 272942007722 active site 272942007723 substrate-binding site [chemical binding]; other site 272942007724 metal-binding site [ion binding] 272942007725 ATP binding site [chemical binding]; other site 272942007726 ribonuclease R; Region: RNase_R; TIGR02063 272942007727 RNB domain; Region: RNB; pfam00773 272942007728 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...; Region: S1_RNase_R; cd04471 272942007729 RNA binding site [nucleotide binding]; other site 272942007730 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 272942007731 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 272942007732 GTP binding site [chemical binding]; other site 272942007733 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...; Region: MoaC_PE; cd01420 272942007734 trimer interface [polypeptide binding]; other site 272942007735 dimer interface [polypeptide binding]; other site 272942007736 putative active site [active] 272942007737 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 272942007738 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...; Region: ThiF_MoeB_HesA_family; cd00757 272942007739 ATP binding site [chemical binding]; other site 272942007740 substrate interface [chemical binding]; other site 272942007741 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 272942007742 MoaE interaction surface [polypeptide binding]; other site 272942007743 MoeB interaction surface [polypeptide binding]; other site 272942007744 thiocarboxylated glycine; other site 272942007745 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 272942007746 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 272942007747 FeS/SAM binding site; other site 272942007748 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272942007749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007750 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 272942007751 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 272942007752 molybdopterin cofactor binding site [chemical binding]; other site 272942007753 substrate binding site [chemical binding]; other site 272942007754 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 272942007755 molybdopterin cofactor binding site; other site 272942007756 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 272942007757 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 272942007758 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 272942007759 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 272942007760 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 272942007761 active site 272942007762 phosphorylation site [posttranslational modification] 272942007763 intermolecular recognition site; other site 272942007764 dimerization interface [polypeptide binding]; other site 272942007765 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...; Region: trans_reg_C; cd00383 272942007766 DNA binding site [nucleotide binding] 272942007767 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272942007768 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 trans-...; Region: HisKA; cd00082 272942007769 dimer interface [polypeptide binding]; other site 272942007770 phosphorylation site [posttranslational modification] 272942007771 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 272942007772 ATP binding site [chemical binding]; other site 272942007773 Mg2+ binding site [ion binding]; other site 272942007774 G-X-G motif; other site 272942007775 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 272942007776 Response regulator receiver domain; Region: Response_reg; pfam00072 272942007777 active site 272942007778 phosphorylation site [posttranslational modification] 272942007779 intermolecular recognition site; other site 272942007780 dimerization interface [polypeptide binding]; other site 272942007781 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 272942007782 substrate binding site [chemical binding]; other site 272942007783 multimerization interface [polypeptide binding]; other site 272942007784 ATP binding site [chemical binding]; other site 272942007785 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- (beta-...; Region: TMP_TenI; cd00564 272942007786 thiamine phosphate binding site [chemical binding]; other site 272942007787 active site 272942007788 pyrophosphate binding site [ion binding]; other site 272942007789 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 272942007790 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 272942007791 dimer interface [polypeptide binding]; other site 272942007792 substrate binding site [chemical binding]; other site 272942007793 ATP binding site [chemical binding]; other site 272942007794 NMT1/THI5 like; Region: NMT1; pfam09084 272942007795 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 272942007796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007797 Walker A/P-loop; other site 272942007798 ATP binding site [chemical binding]; other site 272942007799 Q-loop/lid; other site 272942007800 ABC transporter signature motif; other site 272942007801 Walker B; other site 272942007802 D-loop; other site 272942007803 H-loop/switch region; other site 272942007804 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...; Region: TM_PBP2; cl00427 272942007805 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 272942007806 putative active site [active] 272942007807 heme pocket [chemical binding]; other site 272942007808 PAS fold; Region: PAS_3; pfam08447 272942007809 PAS fold; Region: PAS_3; pfam08447 272942007810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942007811 metal binding site [ion binding]; metal-binding site 272942007812 active site 272942007813 I-site; other site 272942007814 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 272942007815 acetyl-CoA synthetase; Provisional; Region: PRK00174 272942007816 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 272942007817 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942007818 Protein of unknown function, DUF485; Region: DUF485; cl01231 272942007819 Sodium:solute symporter family; Region: SSF; cl00456 272942007820 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272942007821 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 272942007822 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 272942007823 ligand binding site [chemical binding]; other site 272942007824 flexible hinge region; other site 272942007825 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain...; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 272942007826 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272942007827 metal binding triad; other site 272942007828 Response regulator receiver domain; Region: Response_reg; pfam00072 272942007829 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 272942007830 active site 272942007831 phosphorylation site [posttranslational modification] 272942007832 intermolecular recognition site; other site 272942007833 dimerization interface [polypeptide binding]; other site 272942007834 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272942007835 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 272942007836 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272942007837 active site 272942007838 substrate binding site [chemical binding]; other site 272942007839 catalytic site [active] 272942007840 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 272942007841 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 272942007842 FeS/SAM binding site; other site 272942007843 Pyruvate formate lyase 1; Region: PFL1; cd01678 272942007844 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 272942007845 coenzyme A binding site [chemical binding]; other site 272942007846 active site 272942007847 catalytic residues [active] 272942007848 glycine loop; other site 272942007849 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...; Region: Tryp_SPc; cl00149 272942007850 active site 272942007851 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 272942007852 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 alpha-; Region: HCP_like; cl14655 272942007853 Cysteine-rich domain; Region: CCG; pfam02754 272942007854 Cysteine-rich domain; Region: CCG; pfam02754 272942007855 FAD binding domain; Region: FAD_binding_4; pfam01565 272942007856 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 272942007857 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 272942007858 FAD binding domain; Region: FAD_binding_4; pfam01565 272942007859 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272942007860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007861 Walker A/P-loop; other site 272942007862 ATP binding site [chemical binding]; other site 272942007863 Q-loop/lid; other site 272942007864 ABC transporter signature motif; other site 272942007865 Walker B; other site 272942007866 D-loop; other site 272942007867 H-loop/switch region; other site 272942007868 Vi polysaccharide export inner membrane protein VexD; Provisional; Region: PRK15178 272942007869 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 272942007870 NeuB family; Region: NeuB; cl00496 272942007871 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 272942007872 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 272942007873 putative active site; other site 272942007874 catalytic residue [active] 272942007875 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 272942007876 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 272942007877 ligand binding site [chemical binding]; other site 272942007878 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 272942007879 TM-ABC transporter signature motif; other site 272942007880 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 272942007881 TM-ABC transporter signature motif; other site 272942007882 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272942007883 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...; Region: ABC_Carb_Monos_I; cd03216 272942007884 Walker A/P-loop; other site 272942007885 ATP binding site [chemical binding]; other site 272942007886 Q-loop/lid; other site 272942007887 ABC transporter signature motif; other site 272942007888 Walker B; other site 272942007889 D-loop; other site 272942007890 H-loop/switch region; other site 272942007891 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 272942007892 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 272942007893 phosphate binding site [ion binding]; other site 272942007894 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272942007895 transcriptional regulator LsrR; Provisional; Region: PRK15418 272942007896 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942007897 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942007898 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 272942007899 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 272942007900 N- and C-terminal domain interface [polypeptide binding]; other site 272942007901 active site 272942007902 MgATP binding site [chemical binding]; other site 272942007903 catalytic site [active] 272942007904 metal binding site [ion binding]; metal-binding site 272942007905 carbohydrate binding site [chemical binding]; other site 272942007906 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 272942007907 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272942007908 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942007909 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 272942007910 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272942007911 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942007912 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942007913 Cupin domain; Region: Cupin_2; cl09118 272942007914 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942007915 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272942007916 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942007917 Protein of unknown function (DUF982); Region: DUF982; pfam06169 272942007918 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 272942007919 DNA-binding site [nucleotide binding]; DNA binding site 272942007920 RNA-binding motif; other site 272942007921 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272942007922 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272942007923 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942007924 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 272942007925 active site 272942007926 phosphorylation site [posttranslational modification] 272942007927 intermolecular recognition site; other site 272942007928 dimerization interface [polypeptide binding]; other site 272942007929 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...; Region: trans_reg_C; cd00383 272942007930 DNA binding site [nucleotide binding] 272942007931 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942007932 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 trans-...; Region: HisKA; cd00082 272942007933 dimer interface [polypeptide binding]; other site 272942007934 phosphorylation site [posttranslational modification] 272942007935 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 272942007936 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 272942007937 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942007938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942007939 Walker A/P-loop; other site 272942007940 ATP binding site [chemical binding]; other site 272942007941 Q-loop/lid; other site 272942007942 ABC transporter signature motif; other site 272942007943 Walker B; other site 272942007944 D-loop; other site 272942007945 H-loop/switch region; other site 272942007946 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 272942007947 Phage-related protein, tail component [Function unknown]; Region: COG4733 272942007948 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 272942007949 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 272942007950 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 272942007951 Mu-like prophage I protein [General function prediction only]; Region: COG4388 272942007952 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 272942007953 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 272942007954 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 272942007955 non-specific DNA binding site [nucleotide binding]; other site 272942007956 Predicted transcriptional regulator [Transcription]; Region: COG2932 272942007957 salt bridge; other site 272942007958 sequence-specific DNA binding site [nucleotide binding]; other site 272942007959 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 (...; Region: S24_LexA-like; cd06529 272942007960 Catalytic site [active] 272942007961 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272942007962 multiple promoter invertase; Provisional; Region: mpi; PRK13413 272942007963 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 272942007964 catalytic residues [active] 272942007965 catalytic nucleophile [active] 272942007966 Presynaptic Site I dimer interface [polypeptide binding]; other site 272942007967 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272942007968 Synaptic Flat tetramer interface [polypeptide binding]; other site 272942007969 Synaptic Site I dimer interface [polypeptide binding]; other site 272942007970 DNA binding site [nucleotide binding] 272942007971 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 272942007972 DNA-binding interface [nucleotide binding]; DNA binding site 272942007973 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 272942007974 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 272942007975 Phage integrase family; Region: Phage_integrase; pfam00589 272942007976 DNA binding site [nucleotide binding] 272942007977 Int/Topo IB signature motif; other site 272942007978 active site 272942007979 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 272942007980 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 272942007981 Domain of unknown function (DUF955); Region: DUF955; cl01076 272942007982 Uncharacterized conserved protein [Function unknown]; Region: COG4748 272942007983 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 272942007984 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272942007985 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 272942007986 Phage integrase family; Region: Phage_integrase; pfam00589 272942007987 active site 272942007988 Int/Topo IB signature motif; other site 272942007989 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272942007990 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272942007991 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 272942007992 dimer interface [polypeptide binding]; other site 272942007993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942007994 catalytic residue [active] 272942007995 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 272942007996 putative active site pocket [active] 272942007997 dimerization interface [polypeptide binding]; other site 272942007998 putative catalytic residue [active] 272942007999 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 272942008000 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...; Region: ADPRase_NUDT5; cd03424 272942008001 dimer interface [polypeptide binding]; other site 272942008002 ADP-ribose binding site [chemical binding]; other site 272942008003 active site 272942008004 nudix motif; other site 272942008005 metal binding site [ion binding]; metal-binding site 272942008006 deoxyribodipyrimidine photo-lyase, 8-HDF type; Region: photolyase_8HDF; TIGR03556 272942008007 DNA photolyase; Region: DNA_photolyase; pfam00875 272942008008 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 272942008009 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272942008010 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 272942008011 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 272942008012 NeuB family; Region: NeuB; cl00496 272942008013 SAF domain; Region: SAF; cl00555 272942008014 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 272942008015 Rhamnan synthesis protein F; Region: RgpF; cl01529 272942008016 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 272942008017 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 272942008018 active site 272942008019 homodimer interface [polypeptide binding]; other site 272942008020 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272942008021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008022 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272942008023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008024 NAD(P) binding site [chemical binding]; other site 272942008025 active site 272942008026 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 272942008027 ligand binding site [chemical binding]; other site 272942008028 tetramer interface [polypeptide binding]; other site 272942008029 H-type lectin domain; Region: H_lectin; pfam09458 272942008030 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 272942008031 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 272942008032 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 272942008033 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272942008034 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 272942008035 alpha subunit interaction interface [polypeptide binding]; other site 272942008036 Walker A motif; other site 272942008037 ATP binding site [chemical binding]; other site 272942008038 Walker B motif; other site 272942008039 inhibitor binding site; inhibition site 272942008040 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272942008041 ATP synthase; Region: ATP-synt; cl00365 272942008042 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 272942008043 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272942008044 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 272942008045 beta subunit interaction interface [polypeptide binding]; other site 272942008046 Walker A motif; other site 272942008047 ATP binding site [chemical binding]; other site 272942008048 Walker B motif; other site 272942008049 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272942008050 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 272942008051 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 272942008052 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; cl12011 272942008053 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942008054 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 272942008055 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...; Region: AAA; cd00009 272942008056 Walker A motif; other site 272942008057 ATP binding site [chemical binding]; other site 272942008058 Walker B motif; other site 272942008059 arginine finger; other site 272942008060 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...; Region: AAA; cd00009 272942008061 Walker A motif; other site 272942008062 ATP binding site [chemical binding]; other site 272942008063 Walker B motif; other site 272942008064 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272942008065 Peptidase family M23; Region: Peptidase_M23; pfam01551 272942008066 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272942008067 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272942008068 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 272942008069 RNA binding surface [nucleotide binding]; other site 272942008070 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 272942008071 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 272942008072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008073 homodimer interface [polypeptide binding]; other site 272942008074 catalytic residue [active] 272942008075 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 272942008076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008077 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 272942008078 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; cl11537 272942008079 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; cl11537 272942008080 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 272942008081 putative active site pocket [active] 272942008082 dimerization interface [polypeptide binding]; other site 272942008083 putative catalytic residue [active] 272942008084 hypothetical protein; Validated; Region: PRK09039 272942008085 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942008086 ligand binding site [chemical binding]; other site 272942008087 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 272942008088 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 272942008089 putative deacylase active site [active] 272942008090 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272942008091 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 272942008092 NAD binding site [chemical binding]; other site 272942008093 homotetramer interface [polypeptide binding]; other site 272942008094 homodimer interface [polypeptide binding]; other site 272942008095 active site 272942008096 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 272942008097 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 272942008098 dimer interface [polypeptide binding]; other site 272942008099 active site 272942008100 Dehydratase family; Region: ILVD_EDD; cl00340 272942008101 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 272942008102 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 272942008103 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 272942008104 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272942008105 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272942008106 putative acyl-acceptor binding pocket; other site 272942008107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942008108 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 272942008109 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 272942008110 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 272942008111 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 272942008112 putative catalytic cysteine [active] 272942008113 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272942008114 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272942008115 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272942008116 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272942008117 PAS fold; Region: PAS_3; pfam08447 272942008118 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 272942008119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942008120 metal binding site [ion binding]; metal-binding site 272942008121 active site 272942008122 I-site; other site 272942008123 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 272942008124 ApbE family; Region: ApbE; cl00643 272942008125 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272942008126 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272942008127 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_like2; cd06201 272942008128 FAD binding pocket [chemical binding]; other site 272942008129 FAD binding motif [chemical binding]; other site 272942008130 catalytic residues [active] 272942008131 NAD binding pocket [chemical binding]; other site 272942008132 phosphate binding motif [ion binding]; other site 272942008133 beta-alpha-beta structure motif; other site 272942008134 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 272942008135 Uncharacterized conserved protein [Function unknown]; Region: COG5591 272942008136 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 272942008137 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 272942008138 active site 272942008139 phosphorylation site [posttranslational modification] 272942008140 intermolecular recognition site; other site 272942008141 dimerization interface [polypeptide binding]; other site 272942008142 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...; Region: trans_reg_C; cd00383 272942008143 DNA binding site [nucleotide binding] 272942008144 sensor protein QseC; Provisional; Region: PRK10337 272942008145 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 trans-...; Region: HisKA; cd00082 272942008146 dimer interface [polypeptide binding]; other site 272942008147 phosphorylation site [posttranslational modification] 272942008148 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 272942008149 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 272942008150 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 272942008151 putative active site; other site 272942008152 catalytic residue [active] 272942008153 Cache domain; Region: Cache_1; pfam02743 272942008154 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 connected by an extended linker. The...; Region: HAMP; cl01054 272942008155 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 272942008156 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 272942008157 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272942008158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008159 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 272942008160 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 272942008161 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 272942008162 DctM-like transporters; Region: DctM; pfam06808 272942008163 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; cl09110 272942008164 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272942008165 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 272942008166 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 272942008167 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272942008168 putative active site [active] 272942008169 heme pocket [chemical binding]; other site 272942008170 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 trans-...; Region: HisKA; cl00080 272942008171 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 272942008172 ATP binding site [chemical binding]; other site 272942008173 Mg2+ binding site [ion binding]; other site 272942008174 G-X-G motif; other site 272942008175 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 272942008176 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 272942008177 active site 272942008178 phosphorylation site [posttranslational modification] 272942008179 intermolecular recognition site; other site 272942008180 dimerization interface [polypeptide binding]; other site 272942008181 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...; Region: LuxR_C_like; cd06170 272942008182 dimerization interface [polypeptide binding]; other site 272942008183 DNA binding residues [nucleotide binding] 272942008184 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 272942008185 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; cl15259 272942008186 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 272942008187 yiaA/B two helix domain; Region: YiaAB; cl01759 272942008188 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 272942008189 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 272942008190 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 272942008191 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 272942008192 catalytic loop [active] 272942008193 iron binding site [ion binding]; other site 272942008194 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 272942008195 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 alpha-; Region: HCP_like; cl14655 272942008196 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)...; Region: MopB_Formate-Dh-H; cd02753 272942008197 [4Fe-4S] binding site [ion binding]; other site 272942008198 molybdopterin cofactor binding site; other site 272942008199 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...; Region: MopB_CT_Fdh-Nap-like; cd00508 272942008200 molybdopterin cofactor binding site; other site 272942008201 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 272942008202 putative dimer interface [polypeptide binding]; other site 272942008203 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 272942008204 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272942008205 SLBB domain; Region: SLBB; pfam10531 272942008206 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 272942008207 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 272942008208 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 272942008209 putative dimer interface [polypeptide binding]; other site 272942008210 [2Fe-2S] cluster binding site [ion binding]; other site 272942008211 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 272942008212 MoaE homodimer interface [polypeptide binding]; other site 272942008213 MoaD interaction [polypeptide binding]; other site 272942008214 active site residues [active] 272942008215 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 272942008216 MoaE interaction surface [polypeptide binding]; other site 272942008217 MoeB interaction surface [polypeptide binding]; other site 272942008218 thiocarboxylated glycine; other site 272942008219 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 272942008220 Thymidylate synthase complementing protein; Region: Thy1; cl03630 272942008221 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 272942008222 dimer interface [polypeptide binding]; other site 272942008223 active site 272942008224 metal binding site [ion binding]; metal-binding site 272942008225 glutathione binding site [chemical binding]; other site 272942008226 GTP-binding protein YchF; Reviewed; Region: PRK09601 272942008227 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 272942008228 G1 box; other site 272942008229 GTP/Mg2+ binding site [chemical binding]; other site 272942008230 Switch I region; other site 272942008231 G2 box; other site 272942008232 Switch II region; other site 272942008233 G3 box; other site 272942008234 G4 box; other site 272942008235 G5 box; other site 272942008236 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 272942008237 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...; Region: Tryptophan_synthase_alpha; cd04724 272942008238 substrate binding site [chemical binding]; other site 272942008239 active site 272942008240 catalytic residues [active] 272942008241 heterodimer interface [polypeptide binding]; other site 272942008242 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 272942008243 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 272942008244 phosphate binding site [ion binding]; other site 272942008245 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 272942008246 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 272942008247 5S rRNA interface [nucleotide binding]; other site 272942008248 CTC domain interface [polypeptide binding]; other site 272942008249 L16 interface [polypeptide binding]; other site 272942008250 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 272942008251 putative active site [active] 272942008252 catalytic residue [active] 272942008253 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 272942008254 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272942008255 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272942008256 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 272942008257 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272942008258 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272942008259 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...; Region: Sigma70_r4; cd06171 272942008260 DNA binding residues [nucleotide binding] 272942008261 DNA primase, catalytic core; Region: dnaG; TIGR01391 272942008262 CHC2 zinc finger; Region: zf-CHC2; cl02597 272942008263 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272942008264 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 272942008265 active site 272942008266 metal binding site [ion binding]; metal-binding site 272942008267 interdomain interaction site; other site 272942008268 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272942008269 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 272942008270 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272942008271 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 272942008272 homoserine dehydrogenase; Provisional; Region: PRK06349 272942008273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008274 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272942008275 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 272942008276 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 272942008277 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 272942008278 putative active site [active] 272942008279 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272942008280 DHH family; Region: DHH; pfam01368 272942008281 DHHA1 domain; Region: DHHA1; pfam02272 272942008282 HPP family; Region: HPP; pfam04982 272942008283 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-...; Region: CBS_pair; cl09141 272942008284 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]; Region: COG3620 272942008285 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 272942008286 Iron permease FTR1 family; Region: FTR1; cl00475 272942008287 Imelysin; Region: Peptidase_M75; cl09159 272942008288 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 272942008289 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 272942008290 Imelysin; Region: Peptidase_M75; cl09159 272942008291 Cache domain; Region: Cache_1; pfam02743 272942008292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272942008293 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 trans-...; Region: HisKA; cd00082 272942008294 dimer interface [polypeptide binding]; other site 272942008295 phosphorylation site [posttranslational modification] 272942008296 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 272942008297 ATP binding site [chemical binding]; other site 272942008298 Mg2+ binding site [ion binding]; other site 272942008299 G-X-G motif; other site 272942008300 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 272942008301 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 rRNA-...; Region: NusB_Sun; cl00223 272942008302 putative RNA binding site [nucleotide binding]; other site 272942008303 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 272942008304 homopentamer interface [polypeptide binding]; other site 272942008305 active site 272942008306 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 272942008307 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 272942008308 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 272942008309 dimerization interface [polypeptide binding]; other site 272942008310 active site 272942008311 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 272942008312 Lumazine binding domain; Region: Lum_binding; pfam00677 272942008313 Lumazine binding domain; Region: Lum_binding; pfam00677 272942008314 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 272942008315 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942008316 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 272942008317 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 272942008318 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 272942008319 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 272942008320 catalytic motif [active] 272942008321 Zn binding site [ion binding]; other site 272942008322 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 5,10-...; Region: DHFR; cl00161 272942008323 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 272942008324 ATP cone domain; Region: ATP-cone; pfam03477 272942008325 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 272942008326 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 272942008327 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 272942008328 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 272942008329 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272942008330 EcsC protein family; Region: EcsC; pfam12787 272942008331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272942008332 Coenzyme A binding pocket [chemical binding]; other site 272942008333 Flavin Reductases; Region: FlaRed; cl00801 272942008334 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 272942008335 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 272942008336 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272942008337 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272942008338 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272942008339 FAD binding domain; Region: FAD_binding_4; pfam01565 272942008340 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272942008341 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942008342 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272942008343 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272942008344 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272942008345 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 272942008346 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...; Region: Thr-synth_2; cd01560 272942008347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008348 catalytic residue [active] 272942008349 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272942008350 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 272942008351 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 272942008352 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 272942008353 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in...; Region: TOPRIM_TopoIA_TopoI; cd03363 272942008354 active site 272942008355 interdomain interaction site; other site 272942008356 putative metal-binding site [ion binding]; other site 272942008357 nucleotide binding site [chemical binding]; other site 272942008358 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...; Region: TOP1Ac; cd00186 272942008359 domain I; other site 272942008360 DNA binding groove [nucleotide binding] 272942008361 phosphate binding site [ion binding]; other site 272942008362 domain II; other site 272942008363 domain III; other site 272942008364 nucleotide binding site [chemical binding]; other site 272942008365 catalytic site [active] 272942008366 domain IV; other site 272942008367 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 272942008368 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 272942008369 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 272942008370 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 272942008371 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272942008372 FAD binding domain; Region: FAD_binding_4; pfam01565 272942008373 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272942008374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008375 NAD(P) binding site [chemical binding]; other site 272942008376 active site 272942008377 enoyl-CoA hydratase; Provisional; Region: PRK07509 272942008378 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 272942008379 substrate binding site [chemical binding]; other site 272942008380 oxyanion hole (OAH) forming residues; other site 272942008381 trimer interface [polypeptide binding]; other site 272942008382 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 272942008383 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 272942008384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008385 homodimer interface [polypeptide binding]; other site 272942008386 catalytic residue [active] 272942008387 Domain of unknown function (DUF305); Region: DUF305; pfam03713 272942008388 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272942008389 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 272942008390 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942008391 catalytic residue [active] 272942008392 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 272942008393 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942008394 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008395 Walker A/P-loop; other site 272942008396 ATP binding site [chemical binding]; other site 272942008397 Q-loop/lid; other site 272942008398 ABC transporter signature motif; other site 272942008399 Walker B; other site 272942008400 D-loop; other site 272942008401 H-loop/switch region; other site 272942008402 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 272942008403 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 272942008404 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272942008405 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 272942008406 Outer membrane efflux protein; Region: OEP; pfam02321 272942008407 Outer membrane efflux protein; Region: OEP; pfam02321 272942008408 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; cl12011 272942008409 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 272942008410 active site 272942008411 Recombinase; Region: Recombinase; pfam07508 272942008412 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 272942008413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008414 Walker A/P-loop; other site 272942008415 ATP binding site [chemical binding]; other site 272942008416 Q-loop/lid; other site 272942008417 ABC transporter signature motif; other site 272942008418 Walker B; other site 272942008419 D-loop; other site 272942008420 H-loop/switch region; other site 272942008421 ABC transporter; Region: ABC_tran_2; pfam12848 272942008422 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...; Region: ABCF_EF-3; cd03221 272942008423 FRG domain; Region: FRG; cl07460 272942008424 GTP-binding protein LepA; Provisional; Region: PRK05433 272942008425 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 272942008426 G1 box; other site 272942008427 putative GEF interaction site [polypeptide binding]; other site 272942008428 GTP/Mg2+ binding site [chemical binding]; other site 272942008429 Switch I region; other site 272942008430 G2 box; other site 272942008431 G3 box; other site 272942008432 Switch II region; other site 272942008433 G4 box; other site 272942008434 G5 box; other site 272942008435 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding...; Region: Translation_Factor_II_like; cl02787 272942008436 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 272942008437 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272942008438 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 272942008439 metal-binding site [ion binding] 272942008440 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942008441 Active site [active] 272942008442 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 272942008443 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 272942008444 membrane ATPase/protein kinase; Provisional; Region: PRK09435 272942008445 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 272942008446 Walker A; other site 272942008447 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 272942008448 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 272942008449 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 272942008450 ATP binding site [chemical binding]; other site 272942008451 putative Mg++ binding site [ion binding]; other site 272942008452 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008453 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 272942008454 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 272942008455 catalytic triad [active] 272942008456 conserved cis-peptide bond; other site 272942008457 ornithine carbamoyltransferase; Provisional; Region: PRK00779 272942008458 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272942008459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008460 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 272942008461 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 272942008462 inhibitor-cofactor binding pocket; inhibition site 272942008463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008464 catalytic residue [active] 272942008465 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 272942008466 Cytochrome C biogenesis protein; Region: CcmH; cl01179 272942008467 enoyl-CoA hydratase; Provisional; Region: PRK08140 272942008468 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 272942008469 substrate binding site [chemical binding]; other site 272942008470 oxyanion hole (OAH) forming residues; other site 272942008471 trimer interface [polypeptide binding]; other site 272942008472 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 272942008473 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942008474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008475 Walker A/P-loop; other site 272942008476 ATP binding site [chemical binding]; other site 272942008477 Q-loop/lid; other site 272942008478 ABC transporter signature motif; other site 272942008479 Walker B; other site 272942008480 D-loop; other site 272942008481 H-loop/switch region; other site 272942008482 AMP-binding domain protein; Validated; Region: PRK07529 272942008483 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942008484 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 272942008485 DNA-binding site [nucleotide binding]; DNA binding site 272942008486 RNA-binding motif; other site 272942008487 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 272942008488 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272942008489 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 272942008490 FeS/SAM binding site; other site 272942008491 GcrA cell cycle regulator; Region: GcrA; cl11564 272942008492 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272942008493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942008494 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 272942008495 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 272942008496 inhibitor-cofactor binding pocket; inhibition site 272942008497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008498 catalytic residue [active] 272942008499 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 272942008500 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 272942008501 DNA binding residues [nucleotide binding] 272942008502 dimer interface [polypeptide binding]; other site 272942008503 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272942008504 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 272942008505 non-specific DNA binding site [nucleotide binding]; other site 272942008506 salt bridge; other site 272942008507 sequence-specific DNA binding site [nucleotide binding]; other site 272942008508 Cupin domain; Region: Cupin_2; cl09118 272942008509 META domain; Region: META; cl01245 272942008510 Rhomboid family; Region: Rhomboid; cl11446 272942008511 choline dehydrogenase; Validated; Region: PRK02106 272942008512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008513 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 272942008514 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272942008515 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 272942008516 putative tRNA-binding site [nucleotide binding]; other site 272942008517 B3/4 domain; Region: B3_4; cl11458 272942008518 tRNA synthetase B5 domain; Region: B5; cl08394 272942008519 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 272942008520 dimer interface [polypeptide binding]; other site 272942008521 motif 1; other site 272942008522 motif 3; other site 272942008523 motif 2; other site 272942008524 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 272942008525 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272942008526 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 272942008527 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 272942008528 dimer interface [polypeptide binding]; other site 272942008529 motif 1; other site 272942008530 active site 272942008531 motif 2; other site 272942008532 motif 3; other site 272942008533 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272942008534 23S rRNA binding site [nucleotide binding]; other site 272942008535 L21 binding site [polypeptide binding]; other site 272942008536 L13 binding site [polypeptide binding]; other site 272942008537 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 272942008538 pyruvate kinase; Provisional; Region: PRK06247 272942008539 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 272942008540 domain interfaces; other site 272942008541 active site 272942008542 N-formylglutamate amidohydrolase; Region: FGase; cl01522 272942008543 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942008544 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 D-...; Region: D-AAT_like; cd01558 272942008545 homodimer interface [polypeptide binding]; other site 272942008546 substrate-cofactor binding pocket; other site 272942008547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008548 Aminotransferase class IV; Region: Aminotran_4; pfam01063 272942008549 catalytic residue [active] 272942008550 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism...; Region: L-Ala-DL-Glu_epimerase; cd03319 272942008551 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 272942008552 active site 272942008553 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 272942008554 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 272942008555 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942008556 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272942008557 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272942008558 putative acyl-acceptor binding pocket; other site 272942008559 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 272942008560 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272942008561 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008562 Walker A/P-loop; other site 272942008563 ATP binding site [chemical binding]; other site 272942008564 Q-loop/lid; other site 272942008565 ABC transporter signature motif; other site 272942008566 Walker B; other site 272942008567 D-loop; other site 272942008568 H-loop/switch region; other site 272942008569 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 272942008570 TIGR02302 family protein; Region: aProt_lowcomp 272942008571 diaminopimelate decarboxylase; Region: lysA; TIGR01048 272942008572 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 272942008573 active site 272942008574 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272942008575 substrate binding site [chemical binding]; other site 272942008576 catalytic residues [active] 272942008577 dimer interface [polypeptide binding]; other site 272942008578 argininosuccinate lyase; Provisional; Region: PRK00855 272942008579 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272942008580 active sites [active] 272942008581 tetramer interface [polypeptide binding]; other site 272942008582 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...; Region: TlpA_like_family; cd02966 272942008583 catalytic residues [active] 272942008584 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 272942008585 putative active site [active] 272942008586 heme pocket [chemical binding]; other site 272942008587 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 272942008588 putative acyltransferase; Provisional; Region: PRK05790 272942008589 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 272942008590 dimer interface [polypeptide binding]; other site 272942008591 active site 272942008592 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 272942008593 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272942008594 NAD(P) binding site [chemical binding]; other site 272942008595 homotetramer interface [polypeptide binding]; other site 272942008596 homodimer interface [polypeptide binding]; other site 272942008597 active site 272942008598 aromatic amino acid exporter; Provisional; Region: PRK11689 272942008599 EamA-like transporter family; Region: EamA; cl01037 272942008600 Protein of unknown function (DUF465); Region: DUF465; cl01070 272942008601 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 272942008602 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; cl12011 272942008603 Protein of unknown function (DUF2007); Region: DUF2007; pfam09413 272942008604 octaprenyl diphosphate synthase; Provisional; Region: PRK10888 272942008605 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272942008606 substrate binding pocket [chemical binding]; other site 272942008607 chain length determination region; other site 272942008608 substrate-Mg2+ binding site; other site 272942008609 catalytic residues [active] 272942008610 aspartate-rich region 1; other site 272942008611 active site lid residues [active] 272942008612 aspartate-rich region 2; other site 272942008613 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 272942008614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008615 LytTr DNA-binding domain; Region: LytTR; cl04498 272942008616 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 272942008617 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272942008618 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272942008619 homodimer interface [polypeptide binding]; other site 272942008620 NADP binding site [chemical binding]; other site 272942008621 substrate binding site [chemical binding]; other site 272942008622 Chorismate mutase type II; Region: CM_2; cl00693 272942008623 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 272942008624 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 272942008625 Potassium binding sites [ion binding]; other site 272942008626 Cesium cation binding sites [ion binding]; other site 272942008627 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942008628 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272942008629 FtsH Extracellular; Region: FtsH_ext; pfam06480 272942008630 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272942008631 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...; Region: AAA; cd00009 272942008632 Walker A motif; other site 272942008633 ATP binding site [chemical binding]; other site 272942008634 Walker B motif; other site 272942008635 arginine finger; other site 272942008636 Peptidase family M41; Region: Peptidase_M41; pfam01434 272942008637 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 272942008638 Ligand Binding Site [chemical binding]; other site 272942008639 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 272942008640 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942008641 ligand binding site [chemical binding]; other site 272942008642 translocation protein TolB; Provisional; Region: tolB; PRK05137 272942008643 TolB amino-terminal domain; Region: TolB_N; pfam04052 272942008644 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272942008645 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 272942008646 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272942008647 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 272942008648 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...; Region: 4HBT; cd00586 272942008649 active site 272942008650 glycerol kinase; Provisional; Region: glpK; PRK00047 272942008651 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 272942008652 N- and C-terminal domain interface [polypeptide binding]; other site 272942008653 active site 272942008654 MgATP binding site [chemical binding]; other site 272942008655 catalytic site [active] 272942008656 metal binding site [ion binding]; metal-binding site 272942008657 glycerol binding site [chemical binding]; other site 272942008658 homotetramer interface [polypeptide binding]; other site 272942008659 homodimer interface [polypeptide binding]; other site 272942008660 FBP binding site [chemical binding]; other site 272942008661 protein IIAGlc interface [polypeptide binding]; other site 272942008662 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 272942008663 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 272942008664 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 272942008665 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272942008666 active site 272942008667 HIGH motif; other site 272942008668 nucleotide binding site [chemical binding]; other site 272942008669 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272942008670 active site 272942008671 KMSKS motif; other site 272942008672 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 272942008673 tRNA binding surface [nucleotide binding]; other site 272942008674 anticodon binding site; other site 272942008675 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272942008676 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 272942008677 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 272942008678 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272942008679 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 272942008680 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 272942008681 DNA binding site [nucleotide binding] 272942008682 Int/Topo IB signature motif; other site 272942008683 active site 272942008684 Protein of unknown function, DUF484; Region: DUF484; cl01228 272942008685 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 272942008686 active site 272942008687 intersubunit interactions; other site 272942008688 catalytic residue [active] 272942008689 primosome assembly protein PriA; Validated; Region: PRK05580 272942008690 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 272942008691 ATP binding site [chemical binding]; other site 272942008692 putative Mg++ binding site [ion binding]; other site 272942008693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008694 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 272942008695 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; cl12011 272942008696 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 272942008697 active site 272942008698 putative DNA-binding cleft [nucleotide binding]; other site 272942008699 dimer interface [polypeptide binding]; other site 272942008700 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272942008701 RuvA N terminal domain; Region: RuvA_N; pfam01330 272942008702 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 272942008703 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272942008704 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...; Region: AAA; cd00009 272942008705 Walker A motif; other site 272942008706 ATP binding site [chemical binding]; other site 272942008707 Walker B motif; other site 272942008708 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272942008709 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 272942008710 heme-binding site [chemical binding]; other site 272942008711 hypothetical protein; Provisional; Region: PRK05415 272942008712 Domain of unknown function (DUF697); Region: DUF697; cl12064 272942008713 YcjX-like family, DUF463; Region: DUF463; cl01193 272942008714 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272942008715 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 272942008716 dimerization interface 3.5A [polypeptide binding]; other site 272942008717 active site 272942008718 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 272942008719 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 272942008720 NAD(P) binding site [chemical binding]; other site 272942008721 homodimer interface [polypeptide binding]; other site 272942008722 substrate binding site [chemical binding]; other site 272942008723 active site 272942008724 Bacterial sugar transferase; Region: Bac_transf; cl00939 272942008725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008726 active site 272942008727 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272942008728 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 272942008729 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 272942008730 homodimer interface [polypeptide binding]; other site 272942008731 substrate-cofactor binding pocket; other site 272942008732 Aminotransferase class IV; Region: Aminotran_4; pfam01063 272942008733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008734 catalytic residue [active] 272942008735 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 272942008736 Ligand Binding Site [chemical binding]; other site 272942008737 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 272942008738 NifU-like domain; Region: NifU; cl00484 272942008739 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272942008740 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272942008741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942008742 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 272942008743 ligand binding site [chemical binding]; other site 272942008744 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 272942008745 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...; Region: ABC_Carb_Monos_I; cd03216 272942008746 Walker A/P-loop; other site 272942008747 ATP binding site [chemical binding]; other site 272942008748 Q-loop/lid; other site 272942008749 ABC transporter signature motif; other site 272942008750 Walker B; other site 272942008751 D-loop; other site 272942008752 H-loop/switch region; other site 272942008753 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 272942008754 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942008755 TM-ABC transporter signature motif; other site 272942008756 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272942008757 TM-ABC transporter signature motif; other site 272942008758 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272942008759 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272942008760 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 272942008761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942008762 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 272942008763 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of methylmalonyl-; Region: MM_CoA_mutase; cl00817 272942008764 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen...; Region: MM_CoA_mut_B12_BD; cd02071 272942008765 B12 binding site [chemical binding]; other site 272942008766 cobalt ligand [ion binding]; other site 272942008767 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 272942008768 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 272942008769 NAD(P) binding site [chemical binding]; other site 272942008770 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942008771 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272942008772 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272942008773 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272942008774 Ligand binding site [chemical binding]; other site 272942008775 Putative Catalytic site [active] 272942008776 DXD motif; other site 272942008777 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 272942008778 ligand binding site [chemical binding]; other site 272942008779 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 272942008780 putative active site [active] 272942008781 putative metal binding site [ion binding]; other site 272942008782 BioY family; Region: BioY; cl00560 272942008783 Cobalt transport protein; Region: CbiQ; cl00463 272942008784 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 272942008785 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272942008786 Walker A/P-loop; other site 272942008787 ATP binding site [chemical binding]; other site 272942008788 Q-loop/lid; other site 272942008789 ABC transporter signature motif; other site 272942008790 Walker B; other site 272942008791 D-loop; other site 272942008792 H-loop/switch region; other site 272942008793 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942008794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008795 Walker A/P-loop; other site 272942008796 ATP binding site [chemical binding]; other site 272942008797 Q-loop/lid; other site 272942008798 ABC transporter signature motif; other site 272942008799 Walker B; other site 272942008800 D-loop; other site 272942008801 H-loop/switch region; other site 272942008802 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 272942008803 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 272942008804 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...; Region: ABCC_MRP_Like; cd03228 272942008805 Walker A/P-loop; other site 272942008806 ATP binding site [chemical binding]; other site 272942008807 Q-loop/lid; other site 272942008808 ABC transporter signature motif; other site 272942008809 Walker B; other site 272942008810 D-loop; other site 272942008811 H-loop/switch region; other site 272942008812 Cytochrome P450; Region: p450; cl12078 272942008813 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 272942008814 ligand binding site [chemical binding]; other site 272942008815 flexible hinge region; other site 272942008816 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 272942008817 putative switch regulator; other site 272942008818 non-specific DNA interactions [nucleotide binding]; other site 272942008819 DNA binding site [nucleotide binding] 272942008820 sequence specific DNA binding site [nucleotide binding]; other site 272942008821 putative cAMP binding site [chemical binding]; other site 272942008822 Cytochrome P450; Region: p450; cl12078 272942008823 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 272942008824 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 272942008825 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 272942008826 catalytic residues [active] 272942008827 SelR domain; Region: SelR; cl00369 272942008828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942008829 NAD(P) binding site [chemical binding]; other site 272942008830 active site 272942008831 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 272942008832 TOBE domain; Region: TOBE_2; cl01440 272942008833 NifT/FixU protein; Region: NifT; cl02351 272942008834 NifZ domain; Region: NifZ; pfam04319 272942008835 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 272942008836 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 272942008837 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 272942008838 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 272942008839 FeS/SAM binding site; other site 272942008840 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 272942008841 Nif-specific regulatory protein; Region: nifA; TIGR01817 272942008842 GAF domain; Region: GAF; cl00853 272942008843 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...; Region: AAA; cd00009 272942008844 Walker A motif; other site 272942008845 ATP binding site [chemical binding]; other site 272942008846 Walker B motif; other site 272942008847 arginine finger; other site 272942008848 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 272942008849 Nitrogen fixation protein NifW; Region: NifW; cl03935 272942008850 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 272942008851 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 272942008852 active site 272942008853 catalytic residues [active] 272942008854 metal binding site [ion binding]; metal-binding site 272942008855 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 272942008856 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272942008857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942008858 catalytic residue [active] 272942008859 NifU-like domain; Region: NifU; cl00484 272942008860 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272942008861 NifQ; Region: NifQ; pfam04891 272942008862 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 272942008863 Protein of unknown function (DUF683); Region: DUF683; cl02247 272942008864 Protein of unknown function, DUF269; Region: DUF269; cl03973 272942008865 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 272942008866 nitrogenase molybdenum-iron cofactor biosynthesis protein NifN; Region: nifN; TIGR01285 272942008867 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in...; Region: Nitrogenase_NifN_1; cd01966 272942008868 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 272942008869 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 272942008870 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 272942008871 catalytic triad [active] 272942008872 dimer interface [polypeptide binding]; other site 272942008873 ApbE family; Region: ApbE; cl00643 272942008874 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 272942008875 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 272942008876 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 272942008877 catalytic loop [active] 272942008878 iron binding site [ion binding]; other site 272942008879 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272942008880 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272942008881 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272942008882 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 272942008883 B subunit; Region: rnfB; TIGR01944 272942008884 Putative Fe-S cluster; Region: FeS; pfam04060 272942008885 C subunit; Region: rnfC; TIGR01945 272942008886 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272942008887 SLBB domain; Region: SLBB; pfam10531 272942008888 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 alpha-; Region: HCP_like; cl14655 272942008889 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 272942008890 FMN-binding domain; Region: FMN_bind; cl01081 272942008891 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 272942008892 Uncharacterised protein family (UPF0125); Region: UPF0125; cl01096 272942008893 choline-sulfatase; Region: chol_sulfatase; TIGR03417 272942008894 Sulfatase; Region: Sulfatase; cl10460 272942008895 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 272942008896 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272942008897 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 272942008898 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 272942008899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942008900 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 272942008901 dimerization interface [polypeptide binding]; other site 272942008902 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 272942008903 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 272942008904 FeS/SAM binding site; other site 272942008905 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 272942008906 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 272942008907 putative active site [active] 272942008908 PAS fold; Region: PAS_3; pfam08447 272942008909 heme pocket [chemical binding]; other site 272942008910 PAS fold; Region: PAS_3; pfam08447 272942008911 PAS fold; Region: PAS_3; pfam08447 272942008912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272942008913 metal binding site [ion binding]; metal-binding site 272942008914 active site 272942008915 I-site; other site 272942008916 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 272942008917 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942008918 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 272942008919 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 272942008920 metal binding site [ion binding]; metal-binding site 272942008921 dimer interface [polypeptide binding]; other site 272942008922 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...; Region: metallo-dependent_hydrolases; cl00281 272942008923 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272942008924 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272942008925 active site 272942008926 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 272942008927 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 272942008928 Recombination protein O N terminal; Region: RecO_N; pfam11967 272942008929 Recombination protein O C terminal; Region: RecO_C; pfam02565 272942008930 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 272942008931 GTPase Era; Reviewed; Region: era; PRK00089 272942008932 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 272942008933 G1 box; other site 272942008934 GTP/Mg2+ binding site [chemical binding]; other site 272942008935 Switch I region; other site 272942008936 G2 box; other site 272942008937 Switch II region; other site 272942008938 G3 box; other site 272942008939 G4 box; other site 272942008940 G5 box; other site 272942008941 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 272942008942 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 272942008943 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 post-...; Region: RIBOc; cd00593 272942008944 dimerization interface [polypeptide binding]; other site 272942008945 active site 272942008946 metal binding site [ion binding]; metal-binding site 272942008947 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...; Region: DSRM; cd00048 272942008948 dsRNA binding site [nucleotide binding]; other site 272942008949 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272942008950 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 272942008951 Catalytic site [active] 272942008952 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 272942008953 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272942008954 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 272942008955 active site 272942008956 hydrophilic channel; other site 272942008957 dimerization interface [polypeptide binding]; other site 272942008958 catalytic residues [active] 272942008959 active site lid [active] 272942008960 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 272942008961 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272942008962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272942008963 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272942008964 synthetase active site [active] 272942008965 NTP binding site [chemical binding]; other site 272942008966 metal binding site [ion binding]; metal-binding site 272942008967 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...; Region: TGS_RelA_SpoT; cd01668 272942008968 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272942008969 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 272942008970 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 272942008971 catalytic center binding site [active] 272942008972 ATP binding site [chemical binding]; other site 272942008973 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 272942008974 putative metal binding site [ion binding]; other site 272942008975 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 272942008976 active site 272942008977 GAF domain; Region: GAF; cl00853 272942008978 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 272942008979 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 272942008980 anti sigma factor interaction site; other site 272942008981 regulatory phosphorylation site [posttranslational modification]; other site 272942008982 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 272942008983 ATP binding site [chemical binding]; other site 272942008984 Mg2+ binding site [ion binding]; other site 272942008985 G-X-G motif; other site 272942008986 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 272942008987 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 272942008988 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272942008989 catalytic residue [active] 272942008990 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 272942008991 DNA translocase FtsK; Provisional; Region: PRK10263 272942008992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942008993 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 272942008994 aspartate aminotransferase; Provisional; Region: PRK08361 272942008995 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 272942008996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942008997 homodimer interface [polypeptide binding]; other site 272942008998 catalytic residue [active] 272942008999 hypothetical protein; Provisional; Region: PRK06102 272942009000 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; cl11426 272942009001 hypothetical protein; Provisional; Region: PRK09126 272942009002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009003 Trm112p-like protein; Region: Trm112p; cl01066 272942009004 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 272942009005 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 272942009006 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 272942009007 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 272942009008 putative phosphate binding site [ion binding]; other site 272942009009 putative catalytic site [active] 272942009010 active site 272942009011 metal binding site A [ion binding]; metal-binding site 272942009012 DNA binding site [nucleotide binding] 272942009013 putative AP binding site [nucleotide binding]; other site 272942009014 putative metal binding site B [ion binding]; other site 272942009015 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 272942009016 non-specific DNA binding site [nucleotide binding]; other site 272942009017 salt bridge; other site 272942009018 sequence-specific DNA binding site [nucleotide binding]; other site 272942009019 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 272942009020 Domain of unknown function (DUF955); Region: DUF955; cl01076 272942009021 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942009022 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 272942009023 malate synthase A; Region: malate_syn_A; TIGR01344 272942009024 active site 272942009025 isocitrate lyase; Provisional; Region: PRK06498 272942009026 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 272942009027 tetramer interface [polypeptide binding]; other site 272942009028 active site 272942009029 Mg2+/Mn2+ binding site [ion binding]; other site 272942009030 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 272942009031 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 272942009032 ATP cone domain; Region: ATP-cone; pfam03477 272942009033 Class III ribonucleotide reductase; Region: RNR_III; cd01675 272942009034 effector binding site; other site 272942009035 active site 272942009036 Zn binding site [ion binding]; other site 272942009037 glycine loop; other site 272942009038 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 272942009039 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 272942009040 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 272942009041 FeS/SAM binding site; other site 272942009042 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 272942009043 non-specific DNA binding site [nucleotide binding]; other site 272942009044 salt bridge; other site 272942009045 sequence-specific DNA binding site [nucleotide binding]; other site 272942009046 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 272942009047 Domain of unknown function (DUF955); Region: DUF955; cl01076 272942009048 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 272942009049 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...; Region: BFIT_BACH; cd03442 272942009050 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 272942009051 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 272942009052 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 272942009053 oxalacetate binding site [chemical binding]; other site 272942009054 citrylCoA binding site [chemical binding]; other site 272942009055 coenzyme A binding site [chemical binding]; other site 272942009056 catalytic triad [active] 272942009057 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 272942009058 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 272942009059 tetramer interface [polypeptide binding]; other site 272942009060 active site 272942009061 Mg2+/Mn2+ binding site [ion binding]; other site 272942009062 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272942009063 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 272942009064 FAD binding pocket [chemical binding]; other site 272942009065 FAD binding motif [chemical binding]; other site 272942009066 phosphate binding motif [ion binding]; other site 272942009067 beta-alpha-beta structure motif; other site 272942009068 NAD binding pocket [chemical binding]; other site 272942009069 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 272942009070 catalytic loop [active] 272942009071 iron binding site [ion binding]; other site 272942009072 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 272942009073 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 272942009074 [2Fe-2S] cluster binding site [ion binding]; other site 272942009075 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 272942009076 putative alpha subunit interface [polypeptide binding]; other site 272942009077 putative active site [active] 272942009078 putative substrate binding site [chemical binding]; other site 272942009079 Fe binding site [ion binding]; other site 272942009080 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 272942009081 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 272942009082 substrate binding pocket [chemical binding]; other site 272942009083 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 272942009084 B12 binding site [chemical binding]; other site 272942009085 cobalt ligand [ion binding]; other site 272942009086 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 272942009087 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 272942009088 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 272942009089 cobyric acid synthase; Provisional; Region: PRK00784 272942009090 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942009091 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272942009092 catalytic triad [active] 272942009093 cobyric acid synthase; Provisional; Region: PRK00784 272942009094 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942009095 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272942009096 catalytic triad [active] 272942009097 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 272942009098 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 272942009099 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 272942009100 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 272942009101 N-terminal plug; other site 272942009102 ligand-binding site [chemical binding]; other site 272942009103 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942009104 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...; Region: TroA-like; cl00262 272942009105 intersubunit interface [polypeptide binding]; other site 272942009106 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942009107 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942009108 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942009109 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 272942009110 Walker A/P-loop; other site 272942009111 ATP binding site [chemical binding]; other site 272942009112 Q-loop/lid; other site 272942009113 ABC transporter signature motif; other site 272942009114 Walker B; other site 272942009115 D-loop; other site 272942009116 H-loop/switch region; other site 272942009117 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 272942009118 Biotin synthase and related enzymes [Coenzyme metabolism]; Region: BioB; COG0502 272942009119 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 272942009120 FeS/SAM binding site; other site 272942009121 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272942009122 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 272942009123 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942009124 catalytic residue [active] 272942009125 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 272942009126 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 272942009127 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 272942009128 inhibitor-cofactor binding pocket; inhibition site 272942009129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009130 catalytic residue [active] 272942009131 potential frameshift: common BLAST hit: gi|53712892|ref|YP_098884.1| biotin synthesis protein BioC 272942009132 Protein of unknown function (DUF452); Region: DUF452; cl01062 272942009133 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272942009134 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; cl12011 272942009135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942009136 DNA-binding site [nucleotide binding]; DNA binding site 272942009137 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 272942009138 FCD domain; Region: FCD; cl11656 272942009139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009140 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272942009141 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 272942009142 dimerization interface [polypeptide binding]; other site 272942009143 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 272942009144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009145 NAD(P) binding site [chemical binding]; other site 272942009146 active site 272942009147 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 272942009148 tellurium resistance terB-like protein; Region: terB_like; cl11965 272942009149 Acetokinase family; Region: Acetate_kinase; cl01029 272942009150 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 272942009151 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; cl11391 272942009152 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942009153 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 272942009154 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272942009155 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 272942009156 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942009157 Thioesterase domain; Region: Thioesterase; pfam00975 272942009158 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 272942009159 SmpB-tmRNA interface; other site 272942009160 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 272942009161 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 272942009162 active site residue [active] 272942009163 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 272942009164 active site residue [active] 272942009165 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 272942009166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009167 homodimer interface [polypeptide binding]; other site 272942009168 catalytic residue [active] 272942009169 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272942009170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009171 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 272942009172 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...; Region: Biotinyl_lipoyl_domains; cl11404 272942009173 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 272942009174 putative substrate translocation pore; other site 272942009175 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 272942009176 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 272942009177 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 272942009178 Transglycosylase; Region: Transgly; cl07896 272942009179 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272942009180 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 272942009181 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 272942009182 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 272942009183 VacJ like lipoprotein; Region: VacJ; cl01073 272942009184 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 272942009185 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942009186 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 272942009187 Walker A/P-loop; other site 272942009188 ATP binding site [chemical binding]; other site 272942009189 Q-loop/lid; other site 272942009190 ABC transporter signature motif; other site 272942009191 Walker B; other site 272942009192 D-loop; other site 272942009193 H-loop/switch region; other site 272942009194 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272942009195 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...; Region: Biotinyl_lipoyl_domains; cl11404 272942009196 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 272942009197 lytic murein transglycosylase; Region: MltB_2; TIGR02283 272942009198 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 272942009199 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272942009200 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272942009201 putative active site [active] 272942009202 substrate binding site [chemical binding]; other site 272942009203 putative cosubstrate binding site; other site 272942009204 catalytic site [active] 272942009205 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272942009206 substrate binding site [chemical binding]; other site 272942009207 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(...; Region: Pep_deformylase; cd00487 272942009208 active site 272942009209 catalytic residues [active] 272942009210 metal binding site [ion binding]; metal-binding site 272942009211 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(...; Region: Pep_deformylase; cd00487 272942009212 active site 272942009213 catalytic residues [active] 272942009214 metal binding site [ion binding]; metal-binding site 272942009215 aspartate aminotransferase; Provisional; Region: PRK08361 272942009216 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 272942009217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009218 homodimer interface [polypeptide binding]; other site 272942009219 catalytic residue [active] 272942009220 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 272942009221 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 272942009222 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 272942009223 active site 272942009224 dimer interface [polypeptide binding]; other site 272942009225 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272942009226 Clp amino terminal domain; Region: Clp_N; pfam02861 272942009227 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...; Region: AAA; cd00009 272942009228 Walker A motif; other site 272942009229 ATP binding site [chemical binding]; other site 272942009230 Walker B motif; other site 272942009231 arginine finger; other site 272942009232 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...; Region: AAA; cd00009 272942009233 Walker A motif; other site 272942009234 ATP binding site [chemical binding]; other site 272942009235 Walker B motif; other site 272942009236 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272942009237 DNA polymerase IV; Provisional; Region: PRK02794 272942009238 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272942009239 active site 272942009240 DNA binding site [nucleotide binding] 272942009241 N-formylglutamate amidohydrolase; Region: FGase; cl01522 272942009242 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 272942009243 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; cl11391 272942009244 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 272942009245 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; cl12011 272942009246 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 272942009247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009248 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 272942009249 catalytic triad [active] 272942009250 dimer interface [polypeptide binding]; other site 272942009251 FemAB family; Region: FemAB; cl11444 272942009252 Protein of unknown function, DUF482; Region: DUF482; pfam04339 272942009253 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 272942009254 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 272942009255 active site 272942009256 catalytic site [active] 272942009257 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 272942009258 homotrimer interaction site [polypeptide binding]; other site 272942009259 putative active site [active] 272942009260 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272942009261 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 272942009262 Walker A/P-loop; other site 272942009263 ATP binding site [chemical binding]; other site 272942009264 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272942009265 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 272942009266 Walker B; other site 272942009267 D-loop; other site 272942009268 H-loop/switch region; other site 272942009269 LrgA family; Region: LrgA; cl00608 272942009270 LrgB-like family; Region: LrgB; cl00596 272942009271 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 272942009272 RNA/DNA hybrid binding site [nucleotide binding]; other site 272942009273 active site 272942009274 LysE type translocator; Region: LysE; cl00565 272942009275 LytB protein; Region: LYTB; cl00507 272942009276 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 272942009277 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272942009278 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 272942009279 active site 272942009280 phosphorylation site [posttranslational modification] 272942009281 intermolecular recognition site; other site 272942009282 dimerization interface [polypeptide binding]; other site 272942009283 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...; Region: trans_reg_C; cd00383 272942009284 DNA binding site [nucleotide binding] 272942009285 PAS fold; Region: PAS_7; pfam12860 272942009286 PAS fold; Region: PAS_4; pfam08448 272942009287 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272942009288 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 272942009289 ATP binding site [chemical binding]; other site 272942009290 G-X-G motif; other site 272942009291 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272942009292 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 272942009293 active site 272942009294 phosphorylation site [posttranslational modification] 272942009295 intermolecular recognition site; other site 272942009296 dimerization interface [polypeptide binding]; other site 272942009297 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942009298 acyl-CoA synthetase; Provisional; Region: PTZ00342 272942009299 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942009300 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272942009301 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 272942009302 Walker A/P-loop; other site 272942009303 ATP binding site [chemical binding]; other site 272942009304 Q-loop/lid; other site 272942009305 ABC transporter signature motif; other site 272942009306 Walker B; other site 272942009307 D-loop; other site 272942009308 H-loop/switch region; other site 272942009309 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 272942009310 TM-ABC transporter signature motif; other site 272942009311 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 272942009312 TM-ABC transporter signature motif; other site 272942009313 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 272942009314 putative ligand binding site [chemical binding]; other site 272942009315 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 272942009316 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 272942009317 Walker A/P-loop; other site 272942009318 ATP binding site [chemical binding]; other site 272942009319 Q-loop/lid; other site 272942009320 ABC transporter signature motif; other site 272942009321 Walker B; other site 272942009322 D-loop; other site 272942009323 H-loop/switch region; other site 272942009324 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 272942009325 methionine aminopeptidase; Provisional; Region: PRK12318 272942009326 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 272942009327 active site 272942009328 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 272942009329 putative MPT binding site; other site 272942009330 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272942009331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272942009332 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272942009333 ligand binding site [chemical binding]; other site 272942009334 transcriptional regulator; Provisional; Region: PRK10632 272942009335 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009336 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 272942009337 putative effector binding pocket; other site 272942009338 dimerization interface [polypeptide binding]; other site 272942009339 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 272942009340 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 272942009341 active site 272942009342 FMN binding site [chemical binding]; other site 272942009343 2,4-decadienoyl-CoA binding site; other site 272942009344 catalytic residue [active] 272942009345 4Fe-4S cluster binding site [ion binding]; other site 272942009346 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 272942009347 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 272942009348 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272942009349 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...; Region: metallo-dependent_hydrolases; cl00281 272942009350 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 272942009351 active site 272942009352 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 272942009353 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 272942009354 motif II; other site 272942009355 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272942009356 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; cd01494 272942009357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272942009358 catalytic residue [active] 272942009359 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 272942009360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009361 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 272942009362 putative L-serine binding site [chemical binding]; other site 272942009363 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 272942009364 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272942009365 active site 272942009366 metal binding site [ion binding]; metal-binding site 272942009367 beta-ketothiolase; Provisional; Region: PRK09051 272942009368 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 272942009369 dimer interface [polypeptide binding]; other site 272942009370 active site 272942009371 Transglycosylase; Region: Transgly; cl07896 272942009372 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272942009373 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 272942009374 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 272942009375 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or protein-...; Region: APPLE_Factor_XI_like; cd01100 272942009376 putative binding site; other site 272942009377 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 272942009378 MG2 domain; Region: A2M_N; pfam01835 272942009379 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 272942009380 Alpha-2-macroglobulin family; Region: A2M; pfam00207 272942009381 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 272942009382 surface patch; other site 272942009383 thioester region; other site 272942009384 specificity defining residues; other site 272942009385 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 272942009386 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 trans-...; Region: HisKA; cd00082 272942009387 dimer interface [polypeptide binding]; other site 272942009388 phosphorylation site [posttranslational modification] 272942009389 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 272942009390 ATP binding site [chemical binding]; other site 272942009391 Mg2+ binding site [ion binding]; other site 272942009392 G-X-G motif; other site 272942009393 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 272942009394 active site 272942009395 phosphorylation site [posttranslational modification] 272942009396 intermolecular recognition site; other site 272942009397 dimerization interface [polypeptide binding]; other site 272942009398 Response regulator receiver domain; Region: Response_reg; pfam00072 272942009399 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 272942009400 active site 272942009401 phosphorylation site [posttranslational modification] 272942009402 intermolecular recognition site; other site 272942009403 dimerization interface [polypeptide binding]; other site 272942009404 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 272942009405 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 272942009406 ATP binding site [chemical binding]; other site 272942009407 putative Mg++ binding site [ion binding]; other site 272942009408 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 272942009409 nucleotide binding region [chemical binding]; other site 272942009410 ATP-binding site [chemical binding]; other site 272942009411 RQC domain; Region: RQC; cl09632 272942009412 HRDC domain; Region: HRDC; cl02578 272942009413 HRDC domain; Region: HRDC; cl02578 272942009414 YGGT family; Region: YGGT; cl00508 272942009415 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...; Region: 4HBT; cd00586 272942009416 active site 272942009417 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 272942009418 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 272942009419 putative substrate translocation pore; other site 272942009420 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 272942009421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 272942009422 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 272942009423 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 272942009424 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272942009425 substrate binding pocket [chemical binding]; other site 272942009426 chain length determination region; other site 272942009427 substrate-Mg2+ binding site; other site 272942009428 catalytic residues [active] 272942009429 aspartate-rich region 1; other site 272942009430 active site lid residues [active] 272942009431 aspartate-rich region 2; other site 272942009432 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272942009433 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 272942009434 TPP-binding site; other site 272942009435 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 272942009436 PYR/PP interface [polypeptide binding]; other site 272942009437 dimer interface [polypeptide binding]; other site 272942009438 TPP binding site [chemical binding]; other site 272942009439 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272942009440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009441 ornithine cyclodeaminase; Validated; Region: PRK06141 272942009442 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272942009443 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; cl11391 272942009444 Membrane transport protein; Region: Mem_trans; cl09117 272942009445 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 272942009446 diiron binding motif [ion binding]; other site 272942009447 Uncharacterized conserved protein [Function unknown]; Region: COG1633 272942009448 CCC1-related protein family; Region: CCC1_like_1; cd02437 272942009449 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 272942009450 Isochorismatase family; Region: Isochorismatase; pfam00857 272942009451 catalytic triad [active] 272942009452 metal binding site [ion binding]; metal-binding site 272942009453 conserved cis-peptide bond; other site 272942009454 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 272942009455 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl12019 272942009456 active site 272942009457 Phosphate transporter family; Region: PHO4; cl00396 272942009458 Phosphate transporter family; Region: PHO4; cl00396 272942009459 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_9; cd04666 272942009460 nudix motif; other site 272942009461 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272942009462 active site 272942009463 ATP binding site [chemical binding]; other site 272942009464 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 272942009465 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 272942009466 inhibitor-cofactor binding pocket; inhibition site 272942009467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272942009468 catalytic residue [active] 272942009469 RF-1 domain; Region: RF-1; cl02875 272942009470 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 272942009471 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272942009472 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 272942009473 FeS/SAM binding site; other site 272942009474 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 272942009475 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272942009476 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272942009477 SelR domain; Region: SelR; cl00369 272942009478 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 272942009479 FliP family; Region: FliP; cl00593 272942009480 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272942009481 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 272942009482 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272942009483 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 272942009484 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 272942009485 MgtE intracellular N domain; Region: MgtE_N; cl15244 272942009486 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 272942009487 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272942009488 ChuX-like family; Region: DUF1008; cl01509 272942009489 ChuX-like family; Region: DUF1008; cl01509 272942009490 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 272942009491 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 272942009492 FeS/SAM binding site; other site 272942009493 HemN C-terminal region; Region: HemN_C; pfam06969 272942009494 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_6; cd06154 272942009495 homotrimer interaction site [polypeptide binding]; other site 272942009496 putative active site [active] 272942009497 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 Ham1-...; Region: HAM1; cd00515 272942009498 active site 272942009499 dimerization interface [polypeptide binding]; other site 272942009500 ribonuclease PH; Reviewed; Region: rph; PRK00173 272942009501 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 272942009502 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 272942009503 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 272942009504 HrcA protein C terminal domain; Region: HrcA; pfam01628 272942009505 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 272942009506 dimer interface [polypeptide binding]; other site 272942009507 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272942009508 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272942009509 MutS domain I; Region: MutS_I; pfam01624 272942009510 MutS domain II; Region: MutS_II; pfam05188 272942009511 MutS family domain IV; Region: MutS_IV; pfam05190 272942009512 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 272942009513 Walker A/P-loop; other site 272942009514 ATP binding site [chemical binding]; other site 272942009515 Q-loop/lid; other site 272942009516 ABC transporter signature motif; other site 272942009517 Walker B; other site 272942009518 D-loop; other site 272942009519 H-loop/switch region; other site 272942009520 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 272942009521 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272942009522 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272942009523 putative NAD(P) binding site [chemical binding]; other site 272942009524 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272942009525 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...; Region: ribokinase; cd01174 272942009526 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 272942009527 substrate binding site [chemical binding]; other site 272942009528 dimer interface [polypeptide binding]; other site 272942009529 ATP binding site [chemical binding]; other site 272942009530 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 272942009531 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 272942009532 active site 272942009533 phosphorylation site [posttranslational modification] 272942009534 intermolecular recognition site; other site 272942009535 dimerization interface [polypeptide binding]; other site 272942009536 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...; Region: trans_reg_C; cd00383 272942009537 DNA binding site [nucleotide binding] 272942009538 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 272942009539 PhoU domain; Region: PhoU; pfam01895 272942009540 PhoU domain; Region: PhoU; pfam01895 272942009541 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 272942009542 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 272942009543 Walker A/P-loop; other site 272942009544 ATP binding site [chemical binding]; other site 272942009545 Q-loop/lid; other site 272942009546 ABC transporter signature motif; other site 272942009547 Walker B; other site 272942009548 D-loop; other site 272942009549 H-loop/switch region; other site 272942009550 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 272942009551 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...; Region: TM_PBP2; cd06261 272942009552 dimer interface [polypeptide binding]; other site 272942009553 conserved gate region; other site 272942009554 putative PBP binding loops; other site 272942009555 ABC-ATPase subunit interface; other site 272942009556 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 272942009557 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 272942009558 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...; Region: TM_PBP2; cd06261 272942009559 dimer interface [polypeptide binding]; other site 272942009560 conserved gate region; other site 272942009561 putative PBP binding loops; other site 272942009562 ABC-ATPase subunit interface; other site 272942009563 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 272942009564 hypothetical protein; Provisional; Region: PRK02395 272942009565 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...; Region: CbiX_SirB_N; cd03416 272942009566 putative active site [active] 272942009567 EVE domain; Region: EVE; cl00728 272942009568 YCII-related domain; Region: YCII; cl00999 272942009569 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 272942009570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009571 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272942009572 UGMP family protein; Validated; Region: PRK09604 272942009573 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272942009574 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...; Region: HemD; cd06578 272942009575 active site 272942009576 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 272942009577 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 272942009578 HemY protein N-terminus; Region: HemY_N; pfam07219 272942009579 Flagellar L-ring protein; Region: FlgH; cl00905 272942009580 SAF domain; Region: SAF; cl00555 272942009581 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 272942009582 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 272942009583 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 272942009584 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 272942009585 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 272942009586 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 272942009587 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 272942009588 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 272942009589 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 272942009590 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 272942009591 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 272942009592 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 272942009593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942009594 Walker A motif; other site 272942009595 ATP binding site [chemical binding]; other site 272942009596 Walker B motif; other site 272942009597 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 272942009598 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 272942009599 Flagellar protein FlbT; Region: FlbT; cl11455 272942009600 Flagellar protein FlaF; Region: FlaF; cl11454 272942009601 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 272942009602 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272942009603 Rod binding protein; Region: Rod-binding; cl01626 272942009604 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 272942009605 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 272942009606 Flagellar hook capping protein; Region: FlgD; cl04347 272942009607 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272942009608 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 272942009609 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 272942009610 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 272942009611 S-adenosylmethionine binding site [chemical binding]; other site 272942009612 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; cl12011 272942009613 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 272942009614 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 272942009615 DNA binding site [nucleotide binding] 272942009616 catalytic residue [active] 272942009617 H2TH interface [polypeptide binding]; other site 272942009618 putative catalytic residues [active] 272942009619 turnover-facilitating residue; other site 272942009620 intercalation triad [nucleotide binding]; other site 272942009621 8OG recognition residue [nucleotide binding]; other site 272942009622 putative reading head residues; other site 272942009623 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 272942009624 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272942009625 enoyl-CoA hydratase; Provisional; Region: PRK05862 272942009626 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 272942009627 substrate binding site [chemical binding]; other site 272942009628 oxyanion hole (OAH) forming residues; other site 272942009629 trimer interface [polypeptide binding]; other site 272942009630 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 272942009631 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942009632 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...; Region: TM_PBP2; cd06261 272942009633 dimer interface [polypeptide binding]; other site 272942009634 conserved gate region; other site 272942009635 putative PBP binding loops; other site 272942009636 ABC-ATPase subunit interface; other site 272942009637 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272942009638 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...; Region: TM_PBP2; cd06261 272942009639 dimer interface [polypeptide binding]; other site 272942009640 conserved gate region; other site 272942009641 putative PBP binding loops; other site 272942009642 ABC-ATPase subunit interface; other site 272942009643 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 272942009644 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...; Region: PBPb; cd00134 272942009645 substrate binding pocket [chemical binding]; other site 272942009646 membrane-bound complex binding site; other site 272942009647 hinge residues; other site 272942009648 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272942009649 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; Region: ABC_HisP_GlnQ_permeases; cd03262 272942009650 Walker A/P-loop; other site 272942009651 ATP binding site [chemical binding]; other site 272942009652 Q-loop/lid; other site 272942009653 ABC transporter signature motif; other site 272942009654 Walker B; other site 272942009655 D-loop; other site 272942009656 H-loop/switch region; other site 272942009657 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 272942009658 active site/substrate binding site [active] 272942009659 tetramer interface [polypeptide binding]; other site 272942009660 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272942009661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272942009662 DNA-binding site [nucleotide binding]; DNA binding site 272942009663 UTRA domain; Region: UTRA; cl01230 272942009664 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 272942009665 substrate binding site [chemical binding]; other site 272942009666 ATP binding site [chemical binding]; other site 272942009667 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272942009668 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 272942009669 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272942009670 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272942009671 DNA binding site [nucleotide binding] 272942009672 domain linker motif; other site 272942009673 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 272942009674 dimerization interface [polypeptide binding]; other site 272942009675 ligand binding site [chemical binding]; other site 272942009676 hydrolase, ortholog 1, exosortase system type 1 associated; Region: hydr1_PEP; TIGR03100 272942009677 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942009678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942009679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942009680 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 272942009681 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 272942009682 ssDNA binding site [nucleotide binding]; other site 272942009683 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272942009684 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 272942009685 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 272942009686 metal ion-dependent adhesion site (MIDAS); other site 272942009687 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 272942009688 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 272942009689 substrate binding site [chemical binding]; other site 272942009690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009692 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 272942009693 NAD(P) binding site [chemical binding]; other site 272942009694 active site 272942009695 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 272942009696 nudix motif; other site 272942009697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942009698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009699 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 272942009700 putative effector binding pocket; other site 272942009701 putative dimerization interface [polypeptide binding]; other site 272942009702 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 272942009703 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 272942009704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009705 NAD(P) binding site [chemical binding]; other site 272942009706 active site 272942009707 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 272942009708 non-specific DNA binding site [nucleotide binding]; other site 272942009709 salt bridge; other site 272942009710 sequence-specific DNA binding site [nucleotide binding]; other site 272942009711 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 272942009712 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 272942009713 Int/Topo IB signature motif; other site 272942009714 active site 272942009715 DNA binding site [nucleotide binding] 272942009716 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 272942009717 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 272942009718 hypothetical protein; Provisional; Region: PRK08317 272942009719 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 272942009720 S-adenosylmethionine binding site [chemical binding]; other site 272942009721 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; cl12011 272942009722 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272942009723 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942009724 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 272942009725 Walker A/P-loop; other site 272942009726 ATP binding site [chemical binding]; other site 272942009727 Q-loop/lid; other site 272942009728 ABC transporter signature motif; other site 272942009729 Walker B; other site 272942009730 D-loop; other site 272942009731 H-loop/switch region; other site 272942009732 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942009733 dimer interface [polypeptide binding]; other site 272942009734 putative PBP binding regions; other site 272942009735 ABC-ATPase subunit interface; other site 272942009736 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 272942009737 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942009738 putative ligand binding residues [chemical binding]; other site 272942009739 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272942009740 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 272942009741 Walker A/P-loop; other site 272942009742 ATP binding site [chemical binding]; other site 272942009743 Q-loop/lid; other site 272942009744 ABC transporter signature motif; other site 272942009745 Walker B; other site 272942009746 D-loop; other site 272942009747 H-loop/switch region; other site 272942009748 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...; Region: TM_ABC_iron-siderophores_like; cd06550 272942009749 dimer interface [polypeptide binding]; other site 272942009750 putative PBP binding regions; other site 272942009751 ABC-ATPase subunit interface; other site 272942009752 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 272942009753 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942009754 putative ligand binding residues [chemical binding]; other site 272942009755 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 272942009756 Condensation domain; Region: Condensation; cl09290 272942009757 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 272942009758 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272942009759 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272942009760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942009761 Walker A/P-loop; other site 272942009762 ATP binding site [chemical binding]; other site 272942009763 Q-loop/lid; other site 272942009764 ABC transporter signature motif; other site 272942009765 Walker B; other site 272942009766 D-loop; other site 272942009767 H-loop/switch region; other site 272942009768 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272942009769 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 272942009770 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 272942009771 S-adenosylmethionine binding site [chemical binding]; other site 272942009772 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 272942009773 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 272942009774 N-terminal plug; other site 272942009775 ligand-binding site [chemical binding]; other site 272942009776 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942009777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942009778 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272942009779 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 272942009780 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; cl09110 272942009781 DctM-like transporters; Region: DctM; pfam06808 272942009782 Phd_YefM; Region: PhdYeFM; cl09153 272942009783 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 272942009784 oligomeric interface; other site 272942009785 putative active site [active] 272942009786 homodimer interface [polypeptide binding]; other site 272942009787 NnrS protein; Region: NnrS; cl01258 272942009788 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272942009789 ApbE family; Region: ApbE; cl00643 272942009790 NosL; Region: NosL; cl01769 272942009791 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 272942009792 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272942009793 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 272942009794 Walker A/P-loop; other site 272942009795 ATP binding site [chemical binding]; other site 272942009796 Q-loop/lid; other site 272942009797 ABC transporter signature motif; other site 272942009798 Walker B; other site 272942009799 D-loop; other site 272942009800 H-loop/switch region; other site 272942009801 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 272942009802 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 272942009803 nitrous-oxide reductase; Validated; Region: PRK02888 272942009804 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272942009805 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 272942009806 FMN-binding domain; Region: FMN_bind; cl01081 272942009807 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 272942009808 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272942009809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009810 Rrf2 family protein; Region: rrf2_super; TIGR00738 272942009811 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 272942009812 dimerization interface [polypeptide binding]; other site 272942009813 putative DNA binding site [nucleotide binding]; other site 272942009814 putative Zn2+ binding site [ion binding]; other site 272942009815 Membrane transport protein; Region: Mem_trans; cl09117 272942009816 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 272942009817 active site residue [active] 272942009818 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272942009819 Predicted permease; Region: DUF318; cl00487 272942009820 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 272942009821 dimerization interface [polypeptide binding]; other site 272942009822 putative DNA binding site [nucleotide binding]; other site 272942009823 putative Zn2+ binding site [ion binding]; other site 272942009824 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 272942009825 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 272942009826 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272942009827 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 272942009828 dimerization interface [polypeptide binding]; other site 272942009829 putative DNA binding site [nucleotide binding]; other site 272942009830 putative Zn2+ binding site [ion binding]; other site 272942009831 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272942009832 Active site [active] 272942009833 potential frameshift: common BLAST hit: gi|254561081|ref|YP_003068176.1| putative regulator; putative molybdate and DNA-binding domains 272942009834 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 272942009835 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272942009836 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272942009837 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 272942009838 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 272942009839 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 272942009840 putative active site [active] 272942009841 putative metal-binding site [ion binding]; other site 272942009842 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272942009843 UvrD/REP helicase; Region: UvrD-helicase; cl14126 272942009844 short chain dehydrogenase; Provisional; Region: PRK06940 272942009845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009846 active site 272942009847 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 272942009848 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272942009849 catalytic Zn binding site [ion binding]; other site 272942009850 NAD(P) binding site [chemical binding]; other site 272942009851 structural Zn binding site [ion binding]; other site 272942009852 Cupin domain; Region: Cupin_2; cl09118 272942009853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272942009854 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009855 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 272942009856 putative effector binding pocket; other site 272942009857 putative dimerization interface [polypeptide binding]; other site 272942009858 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...; Region: Aldo_ket_red; cd06660 272942009859 catalytic tetrad [active] 272942009860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272942009861 NAD(P) binding site [chemical binding]; other site 272942009862 active site 272942009863 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 272942009864 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...; Region: Aldo_ket_red; cl00470 272942009865 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272942009866 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 272942009867 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...; Region: TM_PBP2; cd06261 272942009868 dimer interface [polypeptide binding]; other site 272942009869 conserved gate region; other site 272942009870 ABC-ATPase subunit interface; other site 272942009871 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 272942009872 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 272942009873 Walker A/P-loop; other site 272942009874 ATP binding site [chemical binding]; other site 272942009875 Q-loop/lid; other site 272942009876 ABC transporter signature motif; other site 272942009877 Walker B; other site 272942009878 D-loop; other site 272942009879 H-loop/switch region; other site 272942009880 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 272942009881 non-specific DNA binding site [nucleotide binding]; other site 272942009882 salt bridge; other site 272942009883 sequence-specific DNA binding site [nucleotide binding]; other site 272942009884 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272942009885 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 272942009886 ligand binding site [chemical binding]; other site 272942009887 flexible hinge region; other site 272942009888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009889 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272942009890 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272942009891 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 272942009892 Walker A/P-loop; other site 272942009893 ATP binding site [chemical binding]; other site 272942009894 Q-loop/lid; other site 272942009895 ABC transporter signature motif; other site 272942009896 Walker B; other site 272942009897 D-loop; other site 272942009898 H-loop/switch region; other site 272942009899 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 272942009900 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 272942009901 Walker A/P-loop; other site 272942009902 ATP binding site [chemical binding]; other site 272942009903 Q-loop/lid; other site 272942009904 ABC transporter signature motif; other site 272942009905 Walker B; other site 272942009906 D-loop; other site 272942009907 H-loop/switch region; other site 272942009908 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942009909 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942009910 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272942009911 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...; Region: TM_ABC_iron-siderophores_like; cl00462 272942009912 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...; Region: FhuD; cd01146 272942009913 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272942009914 siderophore binding site; other site 272942009915 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 272942009916 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 272942009917 N-terminal plug; other site 272942009918 ligand-binding site [chemical binding]; other site 272942009919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942009920 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272942009921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272942009922 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 272942009923 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272942009924 DNA binding residues [nucleotide binding] 272942009925 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...; Region: ParA; cd02042 272942009926 P-loop; other site 272942009927 Magnesium ion binding site [ion binding]; other site 272942009928 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...; Region: ParA; cd02042 272942009929 Magnesium ion binding site [ion binding]; other site 272942009930 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 272942009931 ParB-like nuclease domain; Region: ParBc; cl02129 272942009932 replication initiation protein RepC; Provisional; Region: PRK13824 272942009933 Replication protein C N-terminal domain; Region: RP-C; pfam03428 272942009934 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 272942009935 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 272942009936 Membrane transport protein; Region: Mem_trans; cl09117 272942009937 BioY family; Region: BioY; cl00560 272942009938 Cobalt transport protein; Region: CbiQ; cl00463 272942009939 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 272942009940 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272942009941 Walker A/P-loop; other site 272942009942 ATP binding site [chemical binding]; other site 272942009943 Q-loop/lid; other site 272942009944 ABC transporter signature motif; other site 272942009945 Walker B; other site 272942009946 D-loop; other site 272942009947 H-loop/switch region; other site 272942009948 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 272942009949 Malonate transporter MadL subunit; Region: MadL; cl04273 272942009950 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 272942009951 carboxyltransferase (CT) interaction site; other site 272942009952 biotinylation site [posttranslational modification]; other site 272942009953 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 272942009954 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 272942009955 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942009956 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272942009957 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 272942009958 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 272942009959 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 272942009960 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272942009961 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272942009962 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 272942009963 subunit; Region: OAD_beta; cl00816 272942009964 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 272942009965 HutP; Region: HutP; cl07944 272942009966 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 272942009967 putative active site [active] 272942009968 heme pocket [chemical binding]; other site 272942009969 Chromate transporter; Region: Chromate_transp; pfam02417 272942009970 Chromate transporter; Region: Chromate_transp; pfam02417 272942009971 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 272942009972 S-adenosylmethionine binding site [chemical binding]; other site 272942009973 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 272942009974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 272942009975 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272942009976 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272942009977 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272942009978 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 272942009979 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...; Region: TM_PBP2; cd06261 272942009980 dimer interface [polypeptide binding]; other site 272942009981 conserved gate region; other site 272942009982 putative PBP binding loops; other site 272942009983 ABC-ATPase subunit interface; other site 272942009984 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272942009985 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...; Region: TM_PBP2; cd06261 272942009986 dimer interface [polypeptide binding]; other site 272942009987 conserved gate region; other site 272942009988 putative PBP binding loops; other site 272942009989 ABC-ATPase subunit interface; other site 272942009990 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272942009991 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 272942009992 Walker A/P-loop; other site 272942009993 ATP binding site [chemical binding]; other site 272942009994 Q-loop/lid; other site 272942009995 ABC transporter signature motif; other site 272942009996 Walker B; other site 272942009997 D-loop; other site 272942009998 H-loop/switch region; other site 272942009999 TOBE domain; Region: TOBE_2; cl01440 272942010000 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 272942010001 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272942010002 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 272942010003 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 272942010004 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 272942010005 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 272942010006 putative active site [active] 272942010007 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 272942010008 dimer interface [polypeptide binding]; other site 272942010009 active site 272942010010 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272942010011 active sites [active] 272942010012 argininosuccinate lyase; Provisional; Region: PRK00855 272942010013 tetramer interface [polypeptide binding]; other site