-- dump date 20120504_131501 -- class Genbank::misc_feature -- table misc_feature_note -- id note 397945000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 397945000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 397945000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945000004 Walker A motif; other site 397945000005 ATP binding site [chemical binding]; other site 397945000006 Walker B motif; other site 397945000007 arginine finger; other site 397945000008 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 397945000009 DnaA box-binding interface [nucleotide binding]; other site 397945000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 397945000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 397945000012 putative DNA binding surface [nucleotide binding]; other site 397945000013 dimer interface [polypeptide binding]; other site 397945000014 beta-clamp/clamp loader binding surface; other site 397945000015 beta-clamp/translesion DNA polymerase binding surface; other site 397945000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 397945000017 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 397945000018 ATP binding site [chemical binding]; other site 397945000019 Mg2+ binding site [ion binding]; other site 397945000020 G-X-G motif; other site 397945000021 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 397945000022 anchoring element; other site 397945000023 dimer interface [polypeptide binding]; other site 397945000024 ATP binding site [chemical binding]; other site 397945000025 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 397945000026 active site 397945000027 putative metal-binding site [ion binding]; other site 397945000028 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 397945000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 397945000030 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 397945000031 Divergent AAA domain; Region: AAA_4; pfam04326 397945000032 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 397945000033 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 397945000034 Flagellin N-methylase; Region: FliB; cl00497 397945000035 OsmC-like protein; Region: OsmC; cl00767 397945000036 4Fe-4S binding domain; Region: Fer4; cl02805 397945000037 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 397945000038 homoserine dehydrogenase; Provisional; Region: PRK06349 397945000039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000040 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 397945000041 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 397945000042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945000043 DEAD_2; Region: DEAD_2; pfam06733 397945000044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945000045 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 397945000046 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 397945000047 active site 397945000048 catalytic site [active] 397945000049 substrate binding site [chemical binding]; other site 397945000050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945000051 DNA-binding site [nucleotide binding]; DNA binding site 397945000052 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 397945000053 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945000054 catalytic residue [active] 397945000055 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 397945000056 2-isopropylmalate synthase; Validated; Region: PRK03739 397945000057 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 397945000058 active site 397945000059 catalytic residues [active] 397945000060 metal binding site [ion binding]; metal-binding site 397945000061 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 397945000062 NlpC/P60 family; Region: NLPC_P60; cl11438 397945000063 NeuB family; Region: NeuB; cl00496 397945000064 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 397945000065 GAF domain; Region: GAF; cl15785 397945000066 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 397945000067 PAS fold; Region: PAS_3; pfam08447 397945000068 putative active site [active] 397945000069 heme pocket [chemical binding]; other site 397945000070 GAF domain; Region: GAF_2; pfam13185 397945000071 GAF domain; Region: GAF; cl15785 397945000072 PAS domain S-box; Region: sensory_box; TIGR00229 397945000073 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 397945000074 GAF domain; Region: GAF; cl15785 397945000075 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 397945000076 PAS domain; Region: PAS_9; pfam13426 397945000077 putative active site [active] 397945000078 heme pocket [chemical binding]; other site 397945000079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945000080 metal binding site [ion binding]; metal-binding site 397945000081 active site 397945000082 I-site; other site 397945000083 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 397945000084 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 397945000085 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 397945000086 Putative exonuclease, RdgC; Region: RdgC; cl01122 397945000087 Nucleoside recognition; Region: Gate; cl00486 397945000088 Nucleoside recognition; Region: Gate; cl00486 397945000089 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 397945000090 beta-ketothiolase; Provisional; Region: PRK09051 397945000091 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 397945000092 dimer interface [polypeptide binding]; other site 397945000093 active site 397945000094 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 397945000095 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 397945000096 DNA binding residues [nucleotide binding] 397945000097 dimer interface [polypeptide binding]; other site 397945000098 copper binding site [ion binding]; other site 397945000099 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 397945000100 metal-binding site [ion binding] 397945000101 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 397945000102 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 397945000103 metal-binding site [ion binding] 397945000104 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945000105 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945000106 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945000107 dimerization interface [polypeptide binding]; other site 397945000108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000109 dimer interface [polypeptide binding]; other site 397945000110 putative CheW interface [polypeptide binding]; other site 397945000111 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 397945000112 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; cd00118 397945000113 putative peptidoglycan binding site; other site 397945000114 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 397945000115 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945000116 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945000117 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945000118 Outer membrane efflux protein; Region: OEP; pfam02321 397945000119 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 397945000120 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 397945000121 active site 397945000122 phosphorylation site [posttranslational modification] 397945000123 intermolecular recognition site; other site 397945000124 dimerization interface [polypeptide binding]; other site 397945000125 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945000126 DNA binding site [nucleotide binding] 397945000127 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945000128 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945000129 dimer interface [polypeptide binding]; other site 397945000130 phosphorylation site [posttranslational modification] 397945000131 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 397945000132 ATP binding site [chemical binding]; other site 397945000133 Mg2+ binding site [ion binding]; other site 397945000134 G-X-G motif; other site 397945000135 NIPSNAP; Region: NIPSNAP; pfam07978 397945000136 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 397945000137 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 397945000138 Walker A/P-loop; other site 397945000139 ATP binding site [chemical binding]; other site 397945000140 Q-loop/lid; other site 397945000141 ABC transporter signature motif; other site 397945000142 Walker B; other site 397945000143 D-loop; other site 397945000144 H-loop/switch region; other site 397945000145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945000146 dimer interface [polypeptide binding]; other site 397945000147 conserved gate region; other site 397945000148 putative PBP binding loops; other site 397945000149 ABC-ATPase subunit interface; other site 397945000150 glutathionine S-transferase; Provisional; Region: PRK10542 397945000151 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 397945000152 C-terminal domain interface [polypeptide binding]; other site 397945000153 GSH binding site (G-site) [chemical binding]; other site 397945000154 dimer interface [polypeptide binding]; other site 397945000155 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945000156 dimer interface [polypeptide binding]; other site 397945000157 N-terminal domain interface [polypeptide binding]; other site 397945000158 substrate binding pocket (H-site) [chemical binding]; other site 397945000159 Flagellin N-methylase; Region: FliB; cl00497 397945000160 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945000161 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 397945000162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000163 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 397945000164 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; cl15754 397945000165 LysE type translocator; Region: LysE; cl00565 397945000166 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945000167 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945000168 P-loop; other site 397945000169 Magnesium ion binding site [ion binding]; other site 397945000170 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945000171 Magnesium ion binding site [ion binding]; other site 397945000172 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 397945000173 ParB-like nuclease domain; Region: ParBc; cl02129 397945000174 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 397945000175 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 397945000176 GtrA-like protein; Region: GtrA; cl00971 397945000177 hypothetical protein; Provisional; Region: PRK07233 397945000178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000180 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 397945000181 NAD(P) binding site [chemical binding]; other site 397945000182 active site 397945000183 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 397945000184 classical (c) SDRs; Region: SDR_c; cd05233 397945000185 NAD(P) binding site [chemical binding]; other site 397945000186 active site 397945000187 FAD binding domain; Region: FAD_binding_4; pfam01565 397945000188 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945000189 hypothetical protein; Validated; Region: PRK08238 397945000190 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945000191 UbiA prenyltransferase family; Region: UbiA; cl00337 397945000192 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 397945000193 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 397945000194 Carboxylesterase family; Region: COesterase; pfam00135 397945000195 substrate binding pocket [chemical binding]; other site 397945000196 catalytic triad [active] 397945000197 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 397945000198 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 397945000199 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 397945000200 Precorrin-8X methylmutase; Region: CbiC; pfam02570 397945000201 CbiD; Region: CbiD; cl00828 397945000202 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 397945000203 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 397945000204 S-adenosylmethionine binding site [chemical binding]; other site 397945000205 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 397945000206 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 397945000207 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 397945000208 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 397945000209 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 397945000210 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 397945000211 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 397945000212 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 397945000213 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 397945000214 dimer interface [polypeptide binding]; other site 397945000215 [2Fe-2S] cluster binding site [ion binding]; other site 397945000216 Flavin Reductases; Region: FlaRed; cl00801 397945000217 Cupin domain; Region: Cupin_2; cl09118 397945000218 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945000219 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 397945000220 putative substrate translocation pore; other site 397945000221 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 397945000222 HdeA/HdeB family; Region: HdeA; cl05752 397945000223 Phospholipid methyltransferase; Region: PEMT; cl00763 397945000224 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 397945000225 Transposase domain (DUF772); Region: DUF772; cl15789 397945000226 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945000227 Transposase domain (DUF772); Region: DUF772; cl15789 397945000228 Transposase domain (DUF772); Region: DUF772; cl15789 397945000229 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945000230 Transposase domain (DUF772); Region: DUF772; cl15789 397945000231 YCII-related domain; Region: YCII; cl00999 397945000232 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 397945000233 FAD binding domain; Region: FAD_binding_4; pfam01565 397945000234 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 397945000235 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 397945000236 CoenzymeA binding site [chemical binding]; other site 397945000237 subunit interaction site [polypeptide binding]; other site 397945000238 PHB binding site; other site 397945000239 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 397945000240 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 397945000241 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 397945000242 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 397945000243 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 397945000244 uracil-xanthine permease; Region: ncs2; TIGR00801 397945000245 AsmA-like C-terminal region; Region: AsmA_2; cl15864 397945000246 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945000247 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945000248 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945000249 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000250 dimer interface [polypeptide binding]; other site 397945000251 putative CheW interface [polypeptide binding]; other site 397945000252 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 397945000253 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 397945000254 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 397945000255 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 397945000256 trimer interface [polypeptide binding]; other site 397945000257 putative metal binding site [ion binding]; other site 397945000258 Uncharacterized conserved protein [Function unknown]; Region: COG3603 397945000259 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 397945000260 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 397945000261 Helix-turn-helix domains; Region: HTH; cl00088 397945000262 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 397945000263 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945000264 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945000265 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 397945000266 Walker A/P-loop; other site 397945000267 ATP binding site [chemical binding]; other site 397945000268 Q-loop/lid; other site 397945000269 ABC transporter signature motif; other site 397945000270 Walker B; other site 397945000271 D-loop; other site 397945000272 H-loop/switch region; other site 397945000273 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 397945000274 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 397945000275 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945000276 dimer interface [polypeptide binding]; other site 397945000277 conserved gate region; other site 397945000278 putative PBP binding loops; other site 397945000279 ABC-ATPase subunit interface; other site 397945000280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945000281 dimer interface [polypeptide binding]; other site 397945000282 conserved gate region; other site 397945000283 putative PBP binding loops; other site 397945000284 ABC-ATPase subunit interface; other site 397945000285 hypothetical protein; Provisional; Region: PRK09126 397945000286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000287 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 397945000288 dimer interface [polypeptide binding]; other site 397945000289 NADP binding site [chemical binding]; other site 397945000290 catalytic residues [active] 397945000291 Helix-turn-helix domains; Region: HTH; cl00088 397945000292 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945000293 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945000294 Peptidase family M48; Region: Peptidase_M48; cl12018 397945000295 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 397945000296 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 397945000297 AMP-binding enzyme; Region: AMP-binding; cl15778 397945000298 Arginase family; Region: Arginase; cl00306 397945000299 ornithine cyclodeaminase; Validated; Region: PRK07589 397945000300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000301 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945000302 Helix-turn-helix domains; Region: HTH; cl00088 397945000303 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 397945000304 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 397945000305 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 397945000306 cell division inhibitor MinD; Provisional; Region: PRK10818 397945000307 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 397945000308 Switch I; other site 397945000309 Switch II; other site 397945000310 Septum formation topological specificity factor MinE; Region: MinE; cl00538 397945000311 Flavin Reductases; Region: FlaRed; cl00801 397945000312 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945000313 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 397945000314 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 397945000315 putative active site [active] 397945000316 Zn binding site [ion binding]; other site 397945000317 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945000318 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945000319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000321 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 397945000322 Helix-turn-helix domains; Region: HTH; cl00088 397945000323 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 397945000324 dimerization interface [polypeptide binding]; other site 397945000325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945000326 Helix-turn-helix domains; Region: HTH; cl00088 397945000327 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 397945000328 Ligand Binding Site [chemical binding]; other site 397945000329 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 397945000330 active site 397945000331 metal binding site [ion binding]; metal-binding site 397945000332 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 397945000333 Helix-turn-helix domains; Region: HTH; cl00088 397945000334 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 397945000335 substrate binding pocket [chemical binding]; other site 397945000336 dimerization interface [polypeptide binding]; other site 397945000337 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 397945000338 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 397945000339 active site 397945000340 substrate-binding site [chemical binding]; other site 397945000341 metal-binding site [ion binding] 397945000342 GTP binding site [chemical binding]; other site 397945000343 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 397945000344 Ligand Binding Site [chemical binding]; other site 397945000345 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 397945000346 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 397945000347 threonine dehydratase; Provisional; Region: PRK07334 397945000348 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 397945000349 tetramer interface [polypeptide binding]; other site 397945000350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945000351 catalytic residue [active] 397945000352 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 397945000353 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945000354 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945000355 active site 397945000356 Helix-turn-helix domains; Region: HTH; cl00088 397945000357 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945000358 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 397945000359 dimerization interface [polypeptide binding]; other site 397945000360 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 397945000361 Cupin domain; Region: Cupin_2; cl09118 397945000362 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945000363 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 397945000364 maleylacetoacetate isomerase; Region: maiA; TIGR01262 397945000365 C-terminal domain interface [polypeptide binding]; other site 397945000366 GSH binding site (G-site) [chemical binding]; other site 397945000367 putative dimer interface [polypeptide binding]; other site 397945000368 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 397945000369 dimer interface [polypeptide binding]; other site 397945000370 N-terminal domain interface [polypeptide binding]; other site 397945000371 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 397945000372 benzoate transport; Region: 2A0115; TIGR00895 397945000373 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 397945000374 putative substrate translocation pore; other site 397945000375 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 397945000376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945000377 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 397945000378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000379 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 397945000380 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 397945000381 homodimer interface [polypeptide binding]; other site 397945000382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945000383 catalytic residue [active] 397945000384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 397945000385 YheO-like PAS domain; Region: PAS_6; pfam08348 397945000386 Helix-turn-helix domains; Region: HTH; cl00088 397945000387 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 397945000388 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945000389 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 397945000390 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 397945000391 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945000392 putative active site [active] 397945000393 catalytic site [active] 397945000394 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 397945000395 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 397945000396 ATP binding site [chemical binding]; other site 397945000397 putative Mg++ binding site [ion binding]; other site 397945000398 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 397945000399 nucleotide binding region [chemical binding]; other site 397945000400 ATP-binding site [chemical binding]; other site 397945000401 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 397945000402 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 397945000403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000404 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 397945000405 ADP-ribose binding site [chemical binding]; other site 397945000406 Restriction endonuclease [Defense mechanisms]; Region: COG3587 397945000407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945000408 Helix-turn-helix domains; Region: HTH; cl00088 397945000409 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 397945000410 substrate binding pocket [chemical binding]; other site 397945000411 dimerization interface [polypeptide binding]; other site 397945000412 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 397945000413 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 397945000414 catalytic loop [active] 397945000415 iron binding site [ion binding]; other site 397945000416 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 397945000417 FAD binding pocket [chemical binding]; other site 397945000418 FAD binding motif [chemical binding]; other site 397945000419 phosphate binding motif [ion binding]; other site 397945000420 beta-alpha-beta structure motif; other site 397945000421 NAD binding pocket [chemical binding]; other site 397945000422 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 397945000423 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 397945000424 iron-sulfur cluster [ion binding]; other site 397945000425 [2Fe-2S] cluster binding site [ion binding]; other site 397945000426 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 397945000427 putative alpha subunit interface [polypeptide binding]; other site 397945000428 putative active site [active] 397945000429 putative substrate binding site [chemical binding]; other site 397945000430 Fe binding site [ion binding]; other site 397945000431 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 397945000432 inter-subunit interface; other site 397945000433 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 397945000434 [2Fe-2S] cluster binding site [ion binding]; other site 397945000435 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945000436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000437 dimer interface [polypeptide binding]; other site 397945000438 putative CheW interface [polypeptide binding]; other site 397945000439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945000440 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945000441 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 397945000442 active site 397945000443 phosphorylation site [posttranslational modification] 397945000444 intermolecular recognition site; other site 397945000445 dimerization interface [polypeptide binding]; other site 397945000446 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945000447 Walker A motif; other site 397945000448 ATP binding site [chemical binding]; other site 397945000449 Walker B motif; other site 397945000450 arginine finger; other site 397945000451 Helix-turn-helix domains; Region: HTH; cl00088 397945000452 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945000453 dimer interface [polypeptide binding]; other site 397945000454 phosphorylation site [posttranslational modification] 397945000455 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 397945000456 ATP binding site [chemical binding]; other site 397945000457 Mg2+ binding site [ion binding]; other site 397945000458 G-X-G motif; other site 397945000459 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 397945000460 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 397945000461 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 397945000462 Helix-turn-helix domains; Region: HTH; cl00088 397945000463 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 397945000464 putative dimerization interface [polypeptide binding]; other site 397945000465 putative substrate binding pocket [chemical binding]; other site 397945000466 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945000467 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945000468 active site 397945000469 Cupin domain; Region: Cupin_2; cl09118 397945000470 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945000471 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945000472 Helix-turn-helix domains; Region: HTH; cl00088 397945000473 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945000474 Integrase core domain; Region: rve; cl01316 397945000475 Integrase core domain; Region: rve_3; cl15866 397945000476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945000477 NMT1-like family; Region: NMT1_2; cl15260 397945000478 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 397945000479 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 397945000480 ATP binding site [chemical binding]; other site 397945000481 putative Mg++ binding site [ion binding]; other site 397945000482 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 397945000483 nucleotide binding region [chemical binding]; other site 397945000484 ATP-binding site [chemical binding]; other site 397945000485 RQC domain; Region: RQC; cl09632 397945000486 HRDC domain; Region: HRDC; cl02578 397945000487 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945000488 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945000489 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945000490 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 397945000491 DEAD_2; Region: DEAD_2; pfam06733 397945000492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945000493 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 397945000494 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 397945000495 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 397945000496 NAD(P) binding site [chemical binding]; other site 397945000497 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 397945000498 amidase; Provisional; Region: PRK07869 397945000499 Amidase; Region: Amidase; cl11426 397945000500 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945000501 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 397945000502 N-terminal plug; other site 397945000503 ligand-binding site [chemical binding]; other site 397945000504 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 397945000505 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000506 Helix-turn-helix domains; Region: HTH; cl00088 397945000507 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 397945000508 dimerization interface [polypeptide binding]; other site 397945000509 Predicted membrane protein [Function unknown]; Region: COG4125 397945000510 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 397945000511 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 397945000512 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 397945000513 Helix-turn-helix domains; Region: HTH; cl00088 397945000514 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 397945000515 dimerization interface [polypeptide binding]; other site 397945000516 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 397945000517 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 397945000518 octamer interface [polypeptide binding]; other site 397945000519 active site 397945000520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945000521 NMT1-like family; Region: NMT1_2; cl15260 397945000522 Papain-like cysteine protease AvrRpt2; Region: Peptidase_C70; pfam12385 397945000523 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 397945000524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000525 Helix-turn-helix domains; Region: HTH; cl00088 397945000526 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 397945000527 dimerization interface [polypeptide binding]; other site 397945000528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945000529 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945000530 substrate binding pocket [chemical binding]; other site 397945000531 membrane-bound complex binding site; other site 397945000532 hinge residues; other site 397945000533 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 397945000534 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 397945000535 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945000536 catalytic residue [active] 397945000537 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 397945000538 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945000539 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 397945000540 Walker A/P-loop; other site 397945000541 ATP binding site [chemical binding]; other site 397945000542 Q-loop/lid; other site 397945000543 ABC transporter signature motif; other site 397945000544 Walker B; other site 397945000545 D-loop; other site 397945000546 H-loop/switch region; other site 397945000547 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945000548 dimer interface [polypeptide binding]; other site 397945000549 conserved gate region; other site 397945000550 putative PBP binding loops; other site 397945000551 ABC-ATPase subunit interface; other site 397945000552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945000553 dimer interface [polypeptide binding]; other site 397945000554 conserved gate region; other site 397945000555 putative PBP binding loops; other site 397945000556 ABC-ATPase subunit interface; other site 397945000557 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945000558 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945000559 substrate binding pocket [chemical binding]; other site 397945000560 membrane-bound complex binding site; other site 397945000561 hinge residues; other site 397945000562 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945000563 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945000564 DNA-binding site [nucleotide binding]; DNA binding site 397945000565 FCD domain; Region: FCD; cl11656 397945000566 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 397945000567 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 397945000568 substrate binding pocket [chemical binding]; other site 397945000569 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 397945000570 B12 binding site [chemical binding]; other site 397945000571 cobalt ligand [ion binding]; other site 397945000572 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 397945000573 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 397945000574 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 397945000575 Phosphoesterase family; Region: Phosphoesterase; cl15450 397945000576 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945000577 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945000578 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945000579 metal binding site [ion binding]; metal-binding site 397945000580 active site 397945000581 I-site; other site 397945000582 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 397945000583 Protein of unknown function DUF72; Region: DUF72; cl00777 397945000584 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 397945000585 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 397945000586 FAD binding pocket [chemical binding]; other site 397945000587 FAD binding motif [chemical binding]; other site 397945000588 phosphate binding motif [ion binding]; other site 397945000589 beta-alpha-beta structure motif; other site 397945000590 NAD binding pocket [chemical binding]; other site 397945000591 transcriptional regulator; Provisional; Region: PRK10632 397945000592 Helix-turn-helix domains; Region: HTH; cl00088 397945000593 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 397945000594 putative effector binding pocket; other site 397945000595 putative dimerization interface [polypeptide binding]; other site 397945000596 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945000597 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945000598 dimerization interface [polypeptide binding]; other site 397945000599 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945000600 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945000601 dimer interface [polypeptide binding]; other site 397945000602 putative CheW interface [polypeptide binding]; other site 397945000603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945000604 NMT1-like family; Region: NMT1_2; cl15260 397945000605 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 397945000606 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945000607 dimer interface [polypeptide binding]; other site 397945000608 phosphorylation site [posttranslational modification] 397945000609 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 397945000610 ATP binding site [chemical binding]; other site 397945000611 Mg2+ binding site [ion binding]; other site 397945000612 G-X-G motif; other site 397945000613 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945000614 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 397945000615 active site 397945000616 phosphorylation site [posttranslational modification] 397945000617 intermolecular recognition site; other site 397945000618 dimerization interface [polypeptide binding]; other site 397945000619 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945000620 Walker A motif; other site 397945000621 ATP binding site [chemical binding]; other site 397945000622 Walker B motif; other site 397945000623 arginine finger; other site 397945000624 Helix-turn-helix domains; Region: HTH; cl00088 397945000625 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 397945000626 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 397945000627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945000628 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 397945000629 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 397945000630 Nitrogen regulatory protein P-II; Region: P-II; cl00412 397945000631 Nitrogen regulatory protein P-II; Region: P-II; smart00938 397945000632 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945000633 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 397945000634 PAAR motif; Region: PAAR_motif; cl15808 397945000635 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945000636 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945000637 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945000638 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945000639 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 397945000640 FAD binding domain; Region: FAD_binding_4; pfam01565 397945000641 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 397945000642 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 397945000643 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 397945000644 Cysteine-rich domain; Region: CCG; pfam02754 397945000645 Cysteine-rich domain; Region: CCG; pfam02754 397945000646 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 397945000647 putative RNA binding sites [nucleotide binding]; other site 397945000648 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945000649 Helix-turn-helix domains; Region: HTH; cl00088 397945000650 WYL domain; Region: WYL; cl14852 397945000651 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 397945000652 catalytic residues [active] 397945000653 dimer interface [polypeptide binding]; other site 397945000654 EamA-like transporter family; Region: EamA; cl01037 397945000655 lysophospholipid transporter LplT; Provisional; Region: PRK11195 397945000656 alanine racemase; Reviewed; Region: dadX; PRK03646 397945000657 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 397945000658 active site 397945000659 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945000660 substrate binding site [chemical binding]; other site 397945000661 catalytic residues [active] 397945000662 dimer interface [polypeptide binding]; other site 397945000663 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_2; cd08498 397945000664 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 397945000665 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 397945000666 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 397945000667 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945000668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945000669 NMT1-like family; Region: NMT1_2; cl15260 397945000670 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945000671 Helix-turn-helix domains; Region: HTH; cl00088 397945000672 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945000673 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 397945000674 C-terminal domain interface [polypeptide binding]; other site 397945000675 GSH binding site (G-site) [chemical binding]; other site 397945000676 dimer interface [polypeptide binding]; other site 397945000677 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945000678 N-terminal domain interface [polypeptide binding]; other site 397945000679 dimer interface [polypeptide binding]; other site 397945000680 substrate binding pocket (H-site) [chemical binding]; other site 397945000681 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 397945000682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945000683 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 397945000684 DNA repair protein RadA; Provisional; Region: PRK11823 397945000685 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 397945000686 Walker A motif/ATP binding site; other site 397945000687 ATP binding site [chemical binding]; other site 397945000688 Walker B motif; other site 397945000689 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 397945000690 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 397945000691 homodimer interface [polypeptide binding]; other site 397945000692 substrate-cofactor binding pocket; other site 397945000693 catalytic residue [active] 397945000694 Zinc-finger domain; Region: zf-CHCC; cl01821 397945000695 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 397945000696 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 397945000697 O-Antigen ligase; Region: Wzy_C; cl04850 397945000698 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 397945000699 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 397945000700 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 397945000701 active site 397945000702 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 397945000703 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 397945000704 Nitronate monooxygenase; Region: NMO; pfam03060 397945000705 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 397945000706 FMN binding site [chemical binding]; other site 397945000707 substrate binding site [chemical binding]; other site 397945000708 putative catalytic residue [active] 397945000709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000710 Helix-turn-helix domains; Region: HTH; cl00088 397945000711 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 397945000712 dimerization interface [polypeptide binding]; other site 397945000713 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 397945000714 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945000715 dimerization interface [polypeptide binding]; other site 397945000716 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945000717 dimer interface [polypeptide binding]; other site 397945000718 phosphorylation site [posttranslational modification] 397945000719 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 397945000720 ATP binding site [chemical binding]; other site 397945000721 G-X-G motif; other site 397945000722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945000723 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 397945000724 active site 397945000725 phosphorylation site [posttranslational modification] 397945000726 intermolecular recognition site; other site 397945000727 dimerization interface [polypeptide binding]; other site 397945000728 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945000729 DNA binding site [nucleotide binding] 397945000730 muropeptide transporter; Validated; Region: ampG; PRK11010 397945000731 AmpG-related permease; Region: 2A0125; TIGR00901 397945000732 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945000733 EamA-like transporter family; Region: EamA; cl01037 397945000734 Peptidase family M48; Region: Peptidase_M48; cl12018 397945000735 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 397945000736 transmembrane helices; other site 397945000737 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 397945000738 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945000739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945000740 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945000741 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 397945000742 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945000743 GAF domain; Region: GAF; cl15785 397945000744 GAF domain; Region: GAF_2; pfam13185 397945000745 transcriptional regulator; Provisional; Region: PRK10632 397945000746 Helix-turn-helix domains; Region: HTH; cl00088 397945000747 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 397945000748 dimerization interface [polypeptide binding]; other site 397945000749 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 397945000750 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 397945000751 putative substrate translocation pore; other site 397945000752 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 397945000753 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 397945000754 active site 397945000755 catalytic tetrad [active] 397945000756 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 397945000757 putative active site [active] 397945000758 putative DNA binding site [nucleotide binding]; other site 397945000759 putative phosphate binding site [ion binding]; other site 397945000760 putative catalytic site [active] 397945000761 metal binding site A [ion binding]; metal-binding site 397945000762 putative AP binding site [nucleotide binding]; other site 397945000763 putative metal binding site B [ion binding]; other site 397945000764 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 397945000765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945000766 active site 397945000767 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 397945000768 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 397945000769 GatB domain; Region: GatB_Yqey; cl11497 397945000770 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 397945000771 Amidase; Region: Amidase; cl11426 397945000772 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 397945000773 rod shape-determining protein MreB; Provisional; Region: PRK13927 397945000774 Cell division protein FtsA; Region: FtsA; cl11496 397945000775 rod shape-determining protein MreC; Provisional; Region: PRK13922 397945000776 rod shape-determining protein MreC; Region: MreC; pfam04085 397945000777 rod shape-determining protein MreD; Region: MreD; cl01087 397945000778 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 397945000779 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 397945000780 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945000781 EamA-like transporter family; Region: EamA; cl01037 397945000782 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945000783 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 397945000784 Walker A/P-loop; other site 397945000785 ATP binding site [chemical binding]; other site 397945000786 Q-loop/lid; other site 397945000787 ABC transporter signature motif; other site 397945000788 Walker B; other site 397945000789 D-loop; other site 397945000790 H-loop/switch region; other site 397945000791 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945000792 dimer interface [polypeptide binding]; other site 397945000793 conserved gate region; other site 397945000794 putative PBP binding loops; other site 397945000795 ABC-ATPase subunit interface; other site 397945000796 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945000797 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945000798 substrate binding pocket [chemical binding]; other site 397945000799 membrane-bound complex binding site; other site 397945000800 hinge residues; other site 397945000801 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 397945000802 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 397945000803 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 397945000804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945000805 Helix-turn-helix domains; Region: HTH; cl00088 397945000806 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 397945000807 putative dimerization interface [polypeptide binding]; other site 397945000808 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 397945000809 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 397945000810 choline dehydrogenase; Validated; Region: PRK02106 397945000811 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 397945000812 Permease; Region: Permease; cl00510 397945000813 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 397945000814 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 397945000815 Walker A/P-loop; other site 397945000816 ATP binding site [chemical binding]; other site 397945000817 Q-loop/lid; other site 397945000818 ABC transporter signature motif; other site 397945000819 Walker B; other site 397945000820 D-loop; other site 397945000821 H-loop/switch region; other site 397945000822 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 397945000823 mce related protein; Region: MCE; pfam02470 397945000824 Protein of unknown function (DUF330); Region: DUF330; cl01135 397945000825 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 397945000826 Active Sites [active] 397945000827 CsbD-like; Region: CsbD; cl15799 397945000828 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 397945000829 octamerization interface [polypeptide binding]; other site 397945000830 diferric-oxygen binding site [ion binding]; other site 397945000831 Inner membrane protein CreD; Region: CreD; cl01844 397945000832 sensory histidine kinase CreC; Provisional; Region: PRK11100 397945000833 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945000834 dimer interface [polypeptide binding]; other site 397945000835 phosphorylation site [posttranslational modification] 397945000836 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 397945000837 ATP binding site [chemical binding]; other site 397945000838 Mg2+ binding site [ion binding]; other site 397945000839 G-X-G motif; other site 397945000840 DNA-binding response regulator CreB; Provisional; Region: PRK11083 397945000841 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 397945000842 active site 397945000843 phosphorylation site [posttranslational modification] 397945000844 intermolecular recognition site; other site 397945000845 dimerization interface [polypeptide binding]; other site 397945000846 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945000847 DNA binding site [nucleotide binding] 397945000848 MarC family integral membrane protein; Region: MarC; cl00919 397945000849 short chain dehydrogenase; Provisional; Region: PRK06123 397945000850 classical (c) SDRs; Region: SDR_c; cd05233 397945000851 NAD(P) binding site [chemical binding]; other site 397945000852 active site 397945000853 Dienelactone hydrolase family; Region: DLH; pfam01738 397945000854 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 397945000855 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 397945000856 putative substrate translocation pore; other site 397945000857 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 397945000858 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945000859 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 397945000860 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945000861 Helix-turn-helix domains; Region: HTH; cl00088 397945000862 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 397945000863 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 397945000864 catalytic triad [active] 397945000865 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 397945000866 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 397945000867 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 397945000868 dimer interface [polypeptide binding]; other site 397945000869 allosteric magnesium binding site [ion binding]; other site 397945000870 active site 397945000871 aspartate-rich active site metal binding site; other site 397945000872 Schiff base residues; other site 397945000873 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 397945000874 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 397945000875 dimer interface [polypeptide binding]; other site 397945000876 [2Fe-2S] cluster binding site [ion binding]; other site 397945000877 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 397945000878 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 397945000879 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945000880 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 397945000881 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 397945000882 S17 interaction site [polypeptide binding]; other site 397945000883 S8 interaction site; other site 397945000884 16S rRNA interaction site [nucleotide binding]; other site 397945000885 streptomycin interaction site [chemical binding]; other site 397945000886 23S rRNA interaction site [nucleotide binding]; other site 397945000887 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 397945000888 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 397945000889 elongation factor G; Reviewed; Region: PRK00007 397945000890 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 397945000891 G1 box; other site 397945000892 putative GEF interaction site [polypeptide binding]; other site 397945000893 GTP/Mg2+ binding site [chemical binding]; other site 397945000894 Switch I region; other site 397945000895 G2 box; other site 397945000896 G3 box; other site 397945000897 Switch II region; other site 397945000898 G4 box; other site 397945000899 G5 box; other site 397945000900 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 397945000901 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 397945000902 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 397945000903 elongation factor Tu; Reviewed; Region: PRK00049 397945000904 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 397945000905 G1 box; other site 397945000906 GEF interaction site [polypeptide binding]; other site 397945000907 GTP/Mg2+ binding site [chemical binding]; other site 397945000908 Switch I region; other site 397945000909 G2 box; other site 397945000910 G3 box; other site 397945000911 Switch II region; other site 397945000912 G4 box; other site 397945000913 G5 box; other site 397945000914 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 397945000915 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 397945000916 Antibiotic Binding Site [chemical binding]; other site 397945000917 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 397945000918 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 397945000919 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 397945000920 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 397945000921 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 397945000922 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 397945000923 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 397945000924 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 397945000925 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 397945000926 putative translocon binding site; other site 397945000927 protein-rRNA interface [nucleotide binding]; other site 397945000928 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 397945000929 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 397945000930 G-X-X-G motif; other site 397945000931 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 397945000932 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 397945000933 23S rRNA interface [nucleotide binding]; other site 397945000934 5S rRNA interface [nucleotide binding]; other site 397945000935 putative antibiotic binding site [chemical binding]; other site 397945000936 L25 interface [polypeptide binding]; other site 397945000937 L27 interface [polypeptide binding]; other site 397945000938 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cl09943 397945000939 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 397945000940 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 397945000941 catalytic triad [active] 397945000942 dimer interface [polypeptide binding]; other site 397945000943 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 397945000944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945000945 Coenzyme A binding pocket [chemical binding]; other site 397945000946 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 397945000947 catalytic residues [active] 397945000948 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 397945000949 active pocket/dimerization site; other site 397945000950 active site 397945000951 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 397945000952 dimerization domain swap beta strand [polypeptide binding]; other site 397945000953 regulatory protein interface [polypeptide binding]; other site 397945000954 active site 397945000955 regulatory phosphorylation site [posttranslational modification]; other site 397945000956 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 397945000957 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 397945000958 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 397945000959 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 397945000960 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 397945000961 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 397945000962 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945000963 K+-transporting ATPase, c chain; Region: KdpC; cl00944 397945000964 sensor protein KdpD; Provisional; Region: PRK10490 397945000965 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 397945000966 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 397945000967 GAF domain; Region: GAF; cl15785 397945000968 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945000969 dimer interface [polypeptide binding]; other site 397945000970 phosphorylation site [posttranslational modification] 397945000971 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 397945000972 ATP binding site [chemical binding]; other site 397945000973 Mg2+ binding site [ion binding]; other site 397945000974 G-X-G motif; other site 397945000975 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 397945000976 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 397945000977 active site 397945000978 phosphorylation site [posttranslational modification] 397945000979 intermolecular recognition site; other site 397945000980 dimerization interface [polypeptide binding]; other site 397945000981 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945000982 DNA binding site [nucleotide binding] 397945000983 lipoyl synthase; Provisional; Region: PRK05481 397945000984 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 397945000985 FeS/SAM binding site; other site 397945000986 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 397945000987 Protein of unknown function (DUF493); Region: DUF493; cl01102 397945000988 ATP synthase A chain; Region: ATP-synt_A; cl00413 397945000989 ATP synthase subunit C; Region: ATP-synt_C; cl00466 397945000990 Plant ATP synthase F0; Region: YMF19; cl07975 397945000991 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 397945000992 Plant ATP synthase F0; Region: YMF19; cl07975 397945000993 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 397945000994 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 397945000995 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 397945000996 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 397945000997 beta subunit interaction interface [polypeptide binding]; other site 397945000998 Walker A motif; other site 397945000999 ATP binding site [chemical binding]; other site 397945001000 Walker B motif; other site 397945001001 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 397945001002 ATP synthase; Region: ATP-synt; cl00365 397945001003 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 397945001004 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 397945001005 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 397945001006 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 397945001007 alpha subunit interaction interface [polypeptide binding]; other site 397945001008 Walker A motif; other site 397945001009 ATP binding site [chemical binding]; other site 397945001010 Walker B motif; other site 397945001011 inhibitor binding site; inhibition site 397945001012 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 397945001013 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 397945001014 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 397945001015 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 397945001016 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945001017 ATP-dependent DNA ligase; Validated; Region: PRK09247 397945001018 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 397945001019 active site 397945001020 DNA binding site [nucleotide binding] 397945001021 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 397945001022 DNA binding site [nucleotide binding] 397945001023 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 397945001024 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945001025 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 397945001026 nucleotide binding region [chemical binding]; other site 397945001027 ATP-binding site [chemical binding]; other site 397945001028 DEAD/H associated; Region: DEAD_assoc; pfam08494 397945001029 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 397945001030 putative active site [active] 397945001031 putative metal binding site [ion binding]; other site 397945001032 Repair protein; Region: Repair_PSII; cl01535 397945001033 Repair protein; Region: Repair_PSII; cl01535 397945001034 LemA family; Region: LemA; cl00742 397945001035 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 397945001036 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 397945001037 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 397945001038 Cytochrome c; Region: Cytochrom_C; cl11414 397945001039 Cytochrome c; Region: Cytochrom_C; cl11414 397945001040 Kelch motif; Region: Kelch_1; cl02701 397945001041 nitrile-specifier protein; Region: PLN02193 397945001042 Kelch motif; Region: Kelch_1; cl02701 397945001043 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945001044 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 397945001045 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 397945001046 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945001047 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 397945001048 Helix-turn-helix domains; Region: HTH; cl00088 397945001049 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 397945001050 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 397945001051 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 397945001052 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 397945001053 Transposase domain (DUF772); Region: DUF772; cl15789 397945001054 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945001055 Transposase domain (DUF772); Region: DUF772; cl15789 397945001056 Transposase domain (DUF772); Region: DUF772; cl15789 397945001057 integrase; Provisional; Region: int; PHA02601 397945001058 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 397945001059 DNA binding site [nucleotide binding] 397945001060 Int/Topo IB signature motif; other site 397945001061 active site 397945001062 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 397945001063 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 397945001064 putative active site [active] 397945001065 putative dimer interface [polypeptide binding]; other site 397945001066 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 397945001067 putative substrate translocation pore; other site 397945001068 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 397945001069 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 397945001070 active site 1 [active] 397945001071 dimer interface [polypeptide binding]; other site 397945001072 hexamer interface [polypeptide binding]; other site 397945001073 active site 2 [active] 397945001074 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 397945001075 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945001076 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945001077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001078 dimer interface [polypeptide binding]; other site 397945001079 putative CheW interface [polypeptide binding]; other site 397945001080 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 397945001081 active site 397945001082 Helix-turn-helix domains; Region: HTH; cl00088 397945001083 transcriptional activator TtdR; Provisional; Region: PRK09801 397945001084 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 397945001085 putative effector binding pocket; other site 397945001086 dimerization interface [polypeptide binding]; other site 397945001087 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 397945001088 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 397945001089 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 397945001090 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 397945001091 Trp docking motif [polypeptide binding]; other site 397945001092 putative active site [active] 397945001093 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 397945001094 psiF repeat; Region: PsiF_repeat; pfam07769 397945001095 psiF repeat; Region: PsiF_repeat; pfam07769 397945001096 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 397945001097 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 397945001098 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945001099 active site 397945001100 HIGH motif; other site 397945001101 nucleotide binding site [chemical binding]; other site 397945001102 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 397945001103 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 397945001104 tRNA binding surface [nucleotide binding]; other site 397945001105 anticodon binding site; other site 397945001106 Sporulation related domain; Region: SPOR; cl10051 397945001107 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 397945001108 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 397945001109 catalytic residues [active] 397945001110 hinge region; other site 397945001111 alpha helical domain; other site 397945001112 OstA-like protein; Region: OstA; cl00844 397945001113 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 397945001114 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 397945001115 Walker A/P-loop; other site 397945001116 ATP binding site [chemical binding]; other site 397945001117 Q-loop/lid; other site 397945001118 ABC transporter signature motif; other site 397945001119 Walker B; other site 397945001120 D-loop; other site 397945001121 H-loop/switch region; other site 397945001122 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 397945001123 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 397945001124 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 397945001125 TspO/MBR family; Region: TspO_MBR; cl01379 397945001126 Cache domain; Region: Cache_1; pfam02743 397945001127 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 397945001128 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945001129 dimerization interface [polypeptide binding]; other site 397945001130 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001131 dimer interface [polypeptide binding]; other site 397945001132 putative CheW interface [polypeptide binding]; other site 397945001133 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 397945001134 THUMP domain; Region: THUMP; cl12076 397945001135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001136 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 397945001137 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945001138 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 397945001139 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 397945001140 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 397945001141 Sulfate transporter family; Region: Sulfate_transp; cl15842 397945001142 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 397945001143 Sulfate transporter family; Region: Sulfate_transp; cl15842 397945001144 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 397945001145 CHASE3 domain; Region: CHASE3; cl05000 397945001146 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945001147 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001148 dimer interface [polypeptide binding]; other site 397945001149 putative CheW interface [polypeptide binding]; other site 397945001150 Competence-damaged protein; Region: CinA; cl00666 397945001151 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 397945001152 tetramer interfaces [polypeptide binding]; other site 397945001153 binuclear metal-binding site [ion binding]; other site 397945001154 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 397945001155 conserved hypothetical protein; Region: TIGR02231 397945001156 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 397945001157 thiamine monophosphate kinase; Provisional; Region: PRK05731 397945001158 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 397945001159 ATP binding site [chemical binding]; other site 397945001160 dimerization interface [polypeptide binding]; other site 397945001161 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 397945001162 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 397945001163 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 397945001164 Site-specific recombinase; Region: SpecificRecomb; cl15411 397945001165 Protein of unknown function (DUF525); Region: DUF525; cl01119 397945001166 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 397945001167 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 397945001168 substrate binding site [chemical binding]; other site 397945001169 hexamer interface [polypeptide binding]; other site 397945001170 metal binding site [ion binding]; metal-binding site 397945001171 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 397945001172 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 397945001173 motif II; other site 397945001174 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 397945001175 anthranilate synthase component I; Provisional; Region: PRK13565 397945001176 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 397945001177 chorismate binding enzyme; Region: Chorismate_bind; cl10555 397945001178 Chorismate mutase type II; Region: CM_2; cl00693 397945001179 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945001180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945001181 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945001182 DNA binding site [nucleotide binding] 397945001183 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 397945001184 FliP family; Region: FliP; cl00593 397945001185 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 397945001186 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 397945001187 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 397945001188 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 397945001189 FHIPEP family; Region: FHIPEP; pfam00771 397945001190 type III secretion system protein HrcU; Validated; Region: PRK09108 397945001191 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 397945001192 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 397945001193 type III secretion system ATPase; Provisional; Region: PRK09099 397945001194 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 397945001195 Walker A motif/ATP binding site; other site 397945001196 Walker B motif; other site 397945001197 type III secretion system protein; Reviewed; Region: PRK06937 397945001198 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 397945001199 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 397945001200 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 397945001201 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 397945001202 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 397945001203 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 397945001204 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945001205 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945001206 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945001207 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 397945001208 S-adenosylmethionine binding site [chemical binding]; other site 397945001209 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 397945001210 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 397945001211 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945001212 catalytic residue [active] 397945001213 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 397945001214 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945001215 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945001216 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945001217 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945001218 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945001219 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 397945001220 PAAR motif; Region: PAAR_motif; cl15808 397945001221 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945001222 integrase; Provisional; Region: PRK09692 397945001223 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 397945001224 active site 397945001225 Int/Topo IB signature motif; other site 397945001226 Helix-turn-helix domains; Region: HTH; cl00088 397945001227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945001228 Integrase core domain; Region: rve; cl01316 397945001229 Integrase core domain; Region: rve_3; cl15866 397945001230 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 397945001231 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 397945001232 Active Sites [active] 397945001233 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 397945001234 TraU protein; Region: TraU; cl06067 397945001235 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 397945001236 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 397945001237 MPN+ (JAMM) motif; other site 397945001238 Zinc-binding site [ion binding]; other site 397945001239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945001240 NMT1-like family; Region: NMT1_2; cl15260 397945001241 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 397945001242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001243 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 397945001244 Helix-turn-helix domains; Region: HTH; cl00088 397945001245 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 397945001246 dimerization interface [polypeptide binding]; other site 397945001247 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945001248 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945001249 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945001250 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945001251 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945001252 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 397945001253 PAAR motif; Region: PAAR_motif; cl15808 397945001254 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945001255 RHS Repeat; Region: RHS_repeat; cl11982 397945001256 RHS Repeat; Region: RHS_repeat; cl11982 397945001257 RHS Repeat; Region: RHS_repeat; cl11982 397945001258 RHS Repeat; Region: RHS_repeat; cl11982 397945001259 RHS Repeat; Region: RHS_repeat; cl11982 397945001260 RHS Repeat; Region: RHS_repeat; cl11982 397945001261 RHS protein; Region: RHS; pfam03527 397945001262 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945001263 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 397945001264 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 397945001265 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 397945001266 catalytic residues [active] 397945001267 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 397945001268 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 397945001269 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 397945001270 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 397945001271 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 397945001272 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 397945001273 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 397945001274 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 397945001275 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 397945001276 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 397945001277 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 397945001278 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 397945001279 catalytic residues [active] 397945001280 catalytic nucleophile [active] 397945001281 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945001282 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945001283 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945001284 Synaptic Site I dimer interface [polypeptide binding]; other site 397945001285 DNA binding site [nucleotide binding] 397945001286 Recombinase; Region: Recombinase; pfam07508 397945001287 Helix-turn-helix domains; Region: HTH; cl00088 397945001288 putative transposase OrfB; Reviewed; Region: PHA02517 397945001289 HTH-like domain; Region: HTH_21; pfam13276 397945001290 Integrase core domain; Region: rve; cl01316 397945001291 Integrase core domain; Region: rve_3; cl15866 397945001292 Cell division inhibitor SulA; Region: SulA; cl01880 397945001293 DNA Polymerase Y-family; Region: PolY_like; cd03468 397945001294 DNA binding site [nucleotide binding] 397945001295 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 397945001296 DNA polymerase III, alpha chain, Gram-positive type; Region: polC_Gram_pos; TIGR01405 397945001297 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 397945001298 putative transposase OrfB; Reviewed; Region: PHA02517 397945001299 HTH-like domain; Region: HTH_21; pfam13276 397945001300 Integrase core domain; Region: rve; cl01316 397945001301 Integrase core domain; Region: rve_3; cl15866 397945001302 Helix-turn-helix domains; Region: HTH; cl00088 397945001303 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945001304 Transposase domain (DUF772); Region: DUF772; cl15789 397945001305 Transposase domain (DUF772); Region: DUF772; cl15789 397945001306 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945001307 ABC transporter signature motif; other site 397945001308 Walker B; other site 397945001309 D-loop; other site 397945001310 H-loop/switch region; other site 397945001311 TIR domain; Region: TIR_2; cl15770 397945001312 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 397945001313 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 397945001314 Domain of unknown function DUF87; Region: DUF87; pfam01935 397945001315 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 397945001316 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 397945001317 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 397945001318 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 397945001319 MASE1; Region: MASE1; pfam05231 397945001320 Protein of unknown function (DUF1629); Region: DUF1629; pfam07791 397945001321 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945001322 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 397945001323 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 397945001324 nucleotide binding region [chemical binding]; other site 397945001325 ATP-binding site [chemical binding]; other site 397945001326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001327 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 397945001328 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 397945001329 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 397945001330 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 397945001331 Helix-turn-helix domains; Region: HTH; cl00088 397945001332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945001333 Integrase core domain; Region: rve; cl01316 397945001334 Integrase core domain; Region: rve_3; cl15866 397945001335 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 397945001336 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 397945001337 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 397945001338 HNH endonuclease; Region: HNH_5; pfam14279 397945001339 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; cl15754 397945001340 cofactor binding site; other site 397945001341 DNA binding site [nucleotide binding] 397945001342 substrate interaction site [chemical binding]; other site 397945001343 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; cl15754 397945001344 DNA topoisomerase III; Provisional; Region: PRK07726 397945001345 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 397945001346 active site 397945001347 putative interdomain interaction site [polypeptide binding]; other site 397945001348 putative metal-binding site [ion binding]; other site 397945001349 putative nucleotide binding site [chemical binding]; other site 397945001350 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 397945001351 domain I; other site 397945001352 DNA binding groove [nucleotide binding] 397945001353 phosphate binding site [ion binding]; other site 397945001354 domain II; other site 397945001355 domain III; other site 397945001356 nucleotide binding site [chemical binding]; other site 397945001357 catalytic site [active] 397945001358 domain IV; other site 397945001359 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 397945001360 ssDNA binding site [nucleotide binding]; other site 397945001361 dimer interface [polypeptide binding]; other site 397945001362 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945001363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001364 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 397945001365 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 397945001366 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 397945001367 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 397945001368 ParB-like nuclease domain; Region: ParBc; cl02129 397945001369 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945001370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945001371 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945001372 Magnesium ion binding site [ion binding]; other site 397945001373 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 397945001374 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 397945001375 Putative helicase; Region: TraI_2; pfam07514 397945001376 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 397945001377 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 397945001378 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 397945001379 EamA-like transporter family; Region: EamA; cl01037 397945001380 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 397945001381 Helix-turn-helix domains; Region: HTH; cl00088 397945001382 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 397945001383 dimerization interface [polypeptide binding]; other site 397945001384 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 397945001385 FAD dependent oxidoreductase; Region: DAO; pfam01266 397945001386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001387 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 397945001388 homotrimer interaction site [polypeptide binding]; other site 397945001389 putative active site [active] 397945001390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945001391 NMT1-like family; Region: NMT1_2; cl15260 397945001392 PLD-like domain; Region: PLDc_2; pfam13091 397945001393 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 397945001394 homodimer interface [polypeptide binding]; other site 397945001395 putative active site [active] 397945001396 catalytic site [active] 397945001397 Predicted helicase [General function prediction only]; Region: COG4889 397945001398 Restriction endonuclease; Region: Mrr_cat; cl00516 397945001399 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 397945001400 ATP binding site [chemical binding]; other site 397945001401 putative Mg++ binding site [ion binding]; other site 397945001402 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 397945001403 ATP-binding site [chemical binding]; other site 397945001404 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 397945001405 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 397945001406 putative active site [active] 397945001407 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 397945001408 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 397945001409 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 397945001410 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 397945001411 glutamine binding [chemical binding]; other site 397945001412 catalytic triad [active] 397945001413 LysE type translocator; Region: LysE; cl00565 397945001414 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 397945001415 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 397945001416 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 397945001417 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 397945001418 active site 397945001419 phosphate binding site [ion binding]; other site 397945001420 ribulose/triose binding site [chemical binding]; other site 397945001421 substrate (anthranilate) binding pocket [chemical binding]; other site 397945001422 product (indole) binding pocket [chemical binding]; other site 397945001423 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 397945001424 ligand binding site [chemical binding]; other site 397945001425 active site 397945001426 UGI interface [polypeptide binding]; other site 397945001427 catalytic site [active] 397945001428 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 397945001429 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945001430 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 397945001431 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 397945001432 Cupin domain; Region: Cupin_2; cl09118 397945001433 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945001434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945001435 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 397945001436 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 397945001437 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945001438 Zn2+ binding site [ion binding]; other site 397945001439 Mg2+ binding site [ion binding]; other site 397945001440 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 397945001441 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 397945001442 generic binding surface II; other site 397945001443 ssDNA binding site; other site 397945001444 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 397945001445 ATP binding site [chemical binding]; other site 397945001446 putative Mg++ binding site [ion binding]; other site 397945001447 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 397945001448 nucleotide binding region [chemical binding]; other site 397945001449 ATP-binding site [chemical binding]; other site 397945001450 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 397945001451 Helix-turn-helix domains; Region: HTH; cl00088 397945001452 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 397945001453 dimerization interface [polypeptide binding]; other site 397945001454 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 397945001455 dimerization interface [polypeptide binding]; other site 397945001456 DPS ferroxidase diiron center [ion binding]; other site 397945001457 ion pore; other site 397945001458 UbiA prenyltransferase family; Region: UbiA; cl00337 397945001459 YdjC-like protein; Region: YdjC; cl01344 397945001460 GtrA-like protein; Region: GtrA; cl00971 397945001461 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 397945001462 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 397945001463 Ligand binding site; other site 397945001464 Putative Catalytic site; other site 397945001465 DXD motif; other site 397945001466 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 397945001467 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 397945001468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001469 glycerol kinase; Provisional; Region: glpK; PRK00047 397945001470 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 397945001471 N- and C-terminal domain interface [polypeptide binding]; other site 397945001472 active site 397945001473 MgATP binding site [chemical binding]; other site 397945001474 catalytic site [active] 397945001475 metal binding site [ion binding]; metal-binding site 397945001476 glycerol binding site [chemical binding]; other site 397945001477 homotetramer interface [polypeptide binding]; other site 397945001478 homodimer interface [polypeptide binding]; other site 397945001479 FBP binding site [chemical binding]; other site 397945001480 protein IIAGlc interface [polypeptide binding]; other site 397945001481 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 397945001482 Helix-turn-helix domains; Region: HTH; cl00088 397945001483 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 397945001484 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 397945001485 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 397945001486 Walker A/P-loop; other site 397945001487 ATP binding site [chemical binding]; other site 397945001488 Q-loop/lid; other site 397945001489 ABC transporter signature motif; other site 397945001490 Walker B; other site 397945001491 D-loop; other site 397945001492 H-loop/switch region; other site 397945001493 TOBE domain; Region: TOBE_2; cl01440 397945001494 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 397945001495 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 397945001496 Walker A/P-loop; other site 397945001497 ATP binding site [chemical binding]; other site 397945001498 Q-loop/lid; other site 397945001499 ABC transporter signature motif; other site 397945001500 Walker B; other site 397945001501 D-loop; other site 397945001502 H-loop/switch region; other site 397945001503 TOBE domain; Region: TOBE_2; cl01440 397945001504 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 397945001505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945001506 dimer interface [polypeptide binding]; other site 397945001507 conserved gate region; other site 397945001508 putative PBP binding loops; other site 397945001509 ABC-ATPase subunit interface; other site 397945001510 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 397945001511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945001512 dimer interface [polypeptide binding]; other site 397945001513 conserved gate region; other site 397945001514 putative PBP binding loops; other site 397945001515 ABC-ATPase subunit interface; other site 397945001516 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 397945001517 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945001518 glycerol-3-phosphate dehydrogenase; Region: PLN02464 397945001519 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 397945001520 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 397945001521 KOW motif; Region: KOW; cl00354 397945001522 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 397945001523 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 397945001524 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 397945001525 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 397945001526 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 397945001527 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 397945001528 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 397945001529 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 397945001530 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 397945001531 5S rRNA interface [nucleotide binding]; other site 397945001532 23S rRNA interface [nucleotide binding]; other site 397945001533 L5 interface [polypeptide binding]; other site 397945001534 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 397945001535 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 397945001536 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 397945001537 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 397945001538 23S rRNA binding site [nucleotide binding]; other site 397945001539 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 397945001540 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 397945001541 SecY translocase; Region: SecY; pfam00344 397945001542 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 397945001543 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 397945001544 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 397945001545 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 397945001546 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 397945001547 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 397945001548 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 397945001549 RNA binding surface [nucleotide binding]; other site 397945001550 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 397945001551 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 397945001552 alphaNTD homodimer interface [polypeptide binding]; other site 397945001553 alphaNTD - beta interaction site [polypeptide binding]; other site 397945001554 alphaNTD - beta' interaction site [polypeptide binding]; other site 397945001555 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 397945001556 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 397945001557 putative chaperone; Provisional; Region: PRK11678 397945001558 Predicted methyltransferases [General function prediction only]; Region: COG0313 397945001559 Restriction endonuclease; Region: Mrr_cat; cl00516 397945001560 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 397945001561 dimer interface [polypeptide binding]; other site 397945001562 active site 397945001563 outer membrane lipoprotein; Provisional; Region: PRK11023 397945001564 BON domain; Region: BON; cl02771 397945001565 BON domain; Region: BON; cl02771 397945001566 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 397945001567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001568 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945001569 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945001570 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 397945001571 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 397945001572 Walker A motif; other site 397945001573 ATP binding site [chemical binding]; other site 397945001574 Walker B motif; other site 397945001575 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 397945001576 ligand binding site [chemical binding]; other site 397945001577 flexible hinge region; other site 397945001578 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 397945001579 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 397945001580 Walker A motif; other site 397945001581 ATP binding site [chemical binding]; other site 397945001582 Walker B motif; other site 397945001583 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 397945001584 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945001585 catalytic residue [active] 397945001586 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 397945001587 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 397945001588 tetramer interface [polypeptide binding]; other site 397945001589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945001590 catalytic residue [active] 397945001591 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 397945001592 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945001593 catalytic residue [active] 397945001594 Protein of unknown function (DUF445); Region: DUF445; pfam04286 397945001595 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 397945001596 FAD binding domain; Region: FAD_binding_4; pfam01565 397945001597 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945001598 Family description; Region: UvrD_C_2; cl15862 397945001599 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945001600 Helix-turn-helix domains; Region: HTH; cl00088 397945001601 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945001602 dimerization interface [polypeptide binding]; other site 397945001603 substrate binding pocket [chemical binding]; other site 397945001604 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 397945001605 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 397945001606 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 397945001607 putative active site [active] 397945001608 putative substrate binding site [chemical binding]; other site 397945001609 putative cosubstrate binding site; other site 397945001610 catalytic site [active] 397945001611 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 397945001612 PAS domain; Region: PAS_9; pfam13426 397945001613 putative active site [active] 397945001614 heme pocket [chemical binding]; other site 397945001615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945001616 metal binding site [ion binding]; metal-binding site 397945001617 active site 397945001618 I-site; other site 397945001619 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 397945001620 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 397945001621 MgtC family; Region: MgtC; pfam02308 397945001622 Protein of unknown function, DUF399; Region: DUF399; cl01139 397945001623 transcriptional regulator NarL; Provisional; Region: PRK10651 397945001624 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 397945001625 active site 397945001626 phosphorylation site [posttranslational modification] 397945001627 intermolecular recognition site; other site 397945001628 dimerization interface [polypeptide binding]; other site 397945001629 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945001630 DNA binding residues [nucleotide binding] 397945001631 dimerization interface [polypeptide binding]; other site 397945001632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945001633 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 397945001634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001635 Methyltransferase domain; Region: Methyltransf_31; pfam13847 397945001636 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945001637 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 397945001638 N-terminal plug; other site 397945001639 ligand-binding site [chemical binding]; other site 397945001640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 397945001641 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 397945001642 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 397945001643 putative substrate translocation pore; other site 397945001644 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 397945001645 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 397945001646 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 397945001647 [4Fe-4S] binding site [ion binding]; other site 397945001648 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 397945001649 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 397945001650 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 397945001651 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 397945001652 molybdopterin cofactor binding site; other site 397945001653 nitrate reductase, beta subunit; Region: narH; TIGR01660 397945001654 4Fe-4S binding domain; Region: Fer4; cl02805 397945001655 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 397945001656 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 397945001657 PPIC-type PPIASE domain; Region: Rotamase; cl08278 397945001658 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 397945001659 active site clefts [active] 397945001660 zinc binding site [ion binding]; other site 397945001661 dimer interface [polypeptide binding]; other site 397945001662 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 397945001663 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 397945001664 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 397945001665 thioester formation/cholesterol transfer; other site 397945001666 protein-splicing catalytic site; other site 397945001667 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 397945001668 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 397945001669 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 397945001670 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 397945001671 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 397945001672 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 397945001673 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 397945001674 Int/Topo IB signature motif; other site 397945001675 active site 397945001676 DNA binding site [nucleotide binding] 397945001677 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 397945001678 Helix-turn-helix domains; Region: HTH; cl00088 397945001679 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945001680 Integrase core domain; Region: rve; cl01316 397945001681 Integrase core domain; Region: rve_3; cl15866 397945001682 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945001683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945001684 Family description; Region: UvrD_C_2; cl15862 397945001685 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 397945001686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945001687 Walker A/P-loop; other site 397945001688 ATP binding site [chemical binding]; other site 397945001689 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 397945001690 putative active site [active] 397945001691 putative metal-binding site [ion binding]; other site 397945001692 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 397945001693 Domain of unknown function (DUF932); Region: DUF932; cl12129 397945001694 ParB-like nuclease domain; Region: ParBc; cl02129 397945001695 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 397945001696 Protein of unknown function (DUF736); Region: DUF736; cl02303 397945001697 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 397945001698 non-specific DNA binding site [nucleotide binding]; other site 397945001699 salt bridge; other site 397945001700 sequence-specific DNA binding site [nucleotide binding]; other site 397945001701 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 397945001702 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 397945001703 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 397945001704 Replication initiator protein A; Region: RPA; cl02339 397945001705 ParA-like protein; Provisional; Region: PHA02518 397945001706 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945001707 P-loop; other site 397945001708 Magnesium ion binding site [ion binding]; other site 397945001709 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 397945001710 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 397945001711 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 397945001712 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 397945001713 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 397945001714 Helix-turn-helix domains; Region: HTH; cl00088 397945001715 putative transposase OrfB; Reviewed; Region: PHA02517 397945001716 HTH-like domain; Region: HTH_21; pfam13276 397945001717 Integrase core domain; Region: rve; cl01316 397945001718 Integrase core domain; Region: rve_3; cl15866 397945001719 Helix-turn-helix domains; Region: HTH; cl00088 397945001720 Integrase core domain; Region: rve; cl01316 397945001721 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945001722 Integrase core domain; Region: rve_3; cl15866 397945001723 Cupin domain; Region: Cupin_2; cl09118 397945001724 Helix-turn-helix domain; Region: HTH_18; pfam12833 397945001725 D-cysteine desulfhydrase; Validated; Region: PRK03910 397945001726 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 397945001727 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945001728 catalytic residue [active] 397945001729 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945001730 Helix-turn-helix domains; Region: HTH; cl00088 397945001731 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 397945001732 dimerization interface [polypeptide binding]; other site 397945001733 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945001734 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 397945001735 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 397945001736 putative substrate translocation pore; other site 397945001737 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 397945001738 putative transposase OrfB; Reviewed; Region: PHA02517 397945001739 HTH-like domain; Region: HTH_21; pfam13276 397945001740 Integrase core domain; Region: rve; cl01316 397945001741 Integrase core domain; Region: rve_3; cl15866 397945001742 Helix-turn-helix domains; Region: HTH; cl00088 397945001743 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 397945001744 Helix-turn-helix domains; Region: HTH; cl00088 397945001745 putative transposase OrfB; Reviewed; Region: PHA02517 397945001746 HTH-like domain; Region: HTH_21; pfam13276 397945001747 Integrase core domain; Region: rve; cl01316 397945001748 Integrase core domain; Region: rve_3; cl15866 397945001749 putative transposase OrfB; Reviewed; Region: PHA02517 397945001750 HTH-like domain; Region: HTH_21; pfam13276 397945001751 Integrase core domain; Region: rve; cl01316 397945001752 Integrase core domain; Region: rve_3; cl15866 397945001753 Helix-turn-helix domains; Region: HTH; cl00088 397945001754 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 397945001755 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 397945001756 Integrase core domain; Region: rve; cl01316 397945001757 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 397945001758 Helix-turn-helix domains; Region: HTH; cl00088 397945001759 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945001760 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 397945001761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945001762 Coenzyme A binding pocket [chemical binding]; other site 397945001763 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 397945001764 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 397945001765 active site 397945001766 catalytic tetrad [active] 397945001767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945001768 Helix-turn-helix domains; Region: HTH; cl00088 397945001769 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 397945001770 dimerization interface [polypeptide binding]; other site 397945001771 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 397945001772 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 397945001773 putative substrate translocation pore; other site 397945001774 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 397945001775 Helix-turn-helix domains; Region: HTH; cl00088 397945001776 Integrase core domain; Region: rve; cl01316 397945001777 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945001778 Integrase core domain; Region: rve_3; cl15866 397945001779 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 397945001780 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 397945001781 Helix-turn-helix domains; Region: HTH; cl00088 397945001782 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 397945001783 dimerization interface [polypeptide binding]; other site 397945001784 substrate binding pocket [chemical binding]; other site 397945001785 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 397945001786 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 397945001787 Walker A motif; other site 397945001788 ATP binding site [chemical binding]; other site 397945001789 Walker B motif; other site 397945001790 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 397945001791 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 397945001792 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 397945001793 ATP binding site [chemical binding]; other site 397945001794 Walker A motif; other site 397945001795 hexamer interface [polypeptide binding]; other site 397945001796 Walker B motif; other site 397945001797 TrbC/VIRB2 family; Region: TrbC; cl01583 397945001798 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 397945001799 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 397945001800 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 397945001801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945001802 Walker A motif; other site 397945001803 ATP binding site [chemical binding]; other site 397945001804 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 397945001805 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 397945001806 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 397945001807 VirB8 protein; Region: VirB8; cl01500 397945001808 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 397945001809 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 397945001810 VirB7 interaction site; other site 397945001811 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 397945001812 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 397945001813 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 397945001814 Cupin domain; Region: Cupin_2; cl09118 397945001815 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 397945001816 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 397945001817 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 397945001818 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945001819 Helix-turn-helix domains; Region: HTH; cl00088 397945001820 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945001821 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945001822 TraB family; Region: TraB; cl12050 397945001823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945001824 NMT1-like family; Region: NMT1_2; cl15260 397945001825 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 397945001826 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 397945001827 potential catalytic triad [active] 397945001828 conserved cys residue [active] 397945001829 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945001830 metal binding site [ion binding]; metal-binding site 397945001831 active site 397945001832 I-site; other site 397945001833 Haemolysin-III related; Region: HlyIII; cl03831 397945001834 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945001835 metal binding site [ion binding]; metal-binding site 397945001836 active site 397945001837 I-site; other site 397945001838 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945001839 DctM-like transporters; Region: DctM; pfam06808 397945001840 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945001841 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 397945001842 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945001843 Dehydratase family; Region: ILVD_EDD; cl00340 397945001844 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945001845 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945001846 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945001847 Helix-turn-helix domains; Region: HTH; cl00088 397945001848 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 397945001849 dimerization interface [polypeptide binding]; other site 397945001850 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 397945001851 Helix-turn-helix domains; Region: HTH; cl00088 397945001852 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 397945001853 dimerization interface [polypeptide binding]; other site 397945001854 Pirin-related protein [General function prediction only]; Region: COG1741 397945001855 Cupin domain; Region: Cupin_2; cl09118 397945001856 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 397945001857 catalytic triad [active] 397945001858 dimer interface [polypeptide binding]; other site 397945001859 conserved cis-peptide bond; other site 397945001860 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 397945001861 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 397945001862 active site 397945001863 Transmembrane secretion effector; Region: MFS_3; pfam05977 397945001864 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 397945001865 Predicted ATPase [General function prediction only]; Region: COG4637 397945001866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945001867 Walker A/P-loop; other site 397945001868 ATP binding site [chemical binding]; other site 397945001869 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 397945001870 ABC transporter signature motif; other site 397945001871 Walker B; other site 397945001872 D-loop; other site 397945001873 H-loop/switch region; other site 397945001874 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 397945001875 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 397945001876 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 397945001877 putative [4Fe-4S] binding site [ion binding]; other site 397945001878 putative molybdopterin cofactor binding site [chemical binding]; other site 397945001879 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 397945001880 putative molybdopterin cofactor binding site; other site 397945001881 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945001882 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 397945001883 putative ligand binding site [chemical binding]; other site 397945001884 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 397945001885 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 397945001886 metal binding site [ion binding]; metal-binding site 397945001887 putative dimer interface [polypeptide binding]; other site 397945001888 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945001889 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945001890 metal binding site [ion binding]; metal-binding site 397945001891 putative dimer interface [polypeptide binding]; other site 397945001892 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 397945001893 putative active site [active] 397945001894 Zn binding site [ion binding]; other site 397945001895 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945001896 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945001897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001898 dimer interface [polypeptide binding]; other site 397945001899 putative CheW interface [polypeptide binding]; other site 397945001900 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 397945001901 acyl-CoA binding pocket [chemical binding]; other site 397945001902 CoA binding site [chemical binding]; other site 397945001903 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 397945001904 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 397945001905 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 397945001906 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 397945001907 S-adenosylmethionine binding site [chemical binding]; other site 397945001908 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 397945001909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945001910 NMT1-like family; Region: NMT1_2; cl15260 397945001911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945001912 NMT1-like family; Region: NMT1_2; cl15260 397945001913 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 397945001914 AMP-binding enzyme; Region: AMP-binding; cl15778 397945001915 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945001916 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 397945001917 Walker A/P-loop; other site 397945001918 ATP binding site [chemical binding]; other site 397945001919 Q-loop/lid; other site 397945001920 ABC transporter signature motif; other site 397945001921 Walker B; other site 397945001922 D-loop; other site 397945001923 H-loop/switch region; other site 397945001924 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 397945001925 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945001926 putative ligand binding site [chemical binding]; other site 397945001927 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 397945001928 TM-ABC transporter signature motif; other site 397945001929 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 397945001930 TM-ABC transporter signature motif; other site 397945001931 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945001932 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 397945001933 Walker A/P-loop; other site 397945001934 ATP binding site [chemical binding]; other site 397945001935 Q-loop/lid; other site 397945001936 ABC transporter signature motif; other site 397945001937 Walker B; other site 397945001938 D-loop; other site 397945001939 H-loop/switch region; other site 397945001940 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 397945001941 AMP-binding enzyme; Region: AMP-binding; cl15778 397945001942 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 397945001943 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945001944 Walker A motif; other site 397945001945 ATP binding site [chemical binding]; other site 397945001946 Walker B motif; other site 397945001947 arginine finger; other site 397945001948 Peptidase family M48; Region: Peptidase_M48; cl12018 397945001949 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 397945001950 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 397945001951 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945001952 RNA binding surface [nucleotide binding]; other site 397945001953 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 397945001954 active site 397945001955 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945001956 hypothetical protein; Provisional; Region: PRK07538 397945001957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945001958 Helix-turn-helix domains; Region: HTH; cl00088 397945001959 NMT1-like family; Region: NMT1_2; cl15260 397945001960 Chromate transporter; Region: Chromate_transp; pfam02417 397945001961 Chromate transporter; Region: Chromate_transp; pfam02417 397945001962 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 397945001963 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945001964 C-terminal domain interface [polypeptide binding]; other site 397945001965 GSH binding site (G-site) [chemical binding]; other site 397945001966 dimer interface [polypeptide binding]; other site 397945001967 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 397945001968 dimer interface [polypeptide binding]; other site 397945001969 N-terminal domain interface [polypeptide binding]; other site 397945001970 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 397945001971 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 397945001972 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 397945001973 GAF domain; Region: GAF; cl15785 397945001974 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 397945001975 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 397945001976 DNA binding site [nucleotide binding] 397945001977 Int/Topo IB signature motif; other site 397945001978 active site 397945001979 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 397945001980 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945001981 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 397945001982 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945001983 dimer interface [polypeptide binding]; other site 397945001984 putative CheW interface [polypeptide binding]; other site 397945001985 PUA domain; Region: PUA; cl00607 397945001986 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 397945001987 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 397945001988 S-adenosylmethionine binding site [chemical binding]; other site 397945001989 PAS fold; Region: PAS_7; pfam12860 397945001990 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 397945001991 PAS fold; Region: PAS_7; pfam12860 397945001992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945001993 metal binding site [ion binding]; metal-binding site 397945001994 active site 397945001995 I-site; other site 397945001996 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 397945001997 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 397945001998 P-loop, Walker A motif; other site 397945001999 Base recognition motif; other site 397945002000 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 397945002001 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 397945002002 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 397945002003 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 397945002004 active site 397945002005 HslU subunit interaction site [polypeptide binding]; other site 397945002006 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 397945002007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945002008 Walker A motif; other site 397945002009 ATP binding site [chemical binding]; other site 397945002010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945002011 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 397945002012 cell division protein MraZ; Reviewed; Region: PRK00326 397945002013 MraZ protein; Region: MraZ; pfam02381 397945002014 MraZ protein; Region: MraZ; pfam02381 397945002015 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 397945002016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002017 Septum formation initiator; Region: DivIC; cl11433 397945002018 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 397945002019 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 397945002020 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945002021 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 397945002022 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002024 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002025 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 397945002026 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002027 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002028 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002029 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 397945002030 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 397945002031 Mg++ binding site [ion binding]; other site 397945002032 putative catalytic motif [active] 397945002033 putative substrate binding site [chemical binding]; other site 397945002034 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 397945002035 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002036 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 397945002037 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 397945002038 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 397945002039 active site 397945002040 homodimer interface [polypeptide binding]; other site 397945002041 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 397945002042 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002043 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002044 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002045 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 397945002046 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 397945002047 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945002048 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 397945002049 Cell division protein FtsQ; Region: FtsQ; pfam03799 397945002050 cell division protein FtsA; Region: ftsA; TIGR01174 397945002051 Cell division protein FtsA; Region: FtsA; cl11496 397945002052 Cell division protein FtsA; Region: FtsA; cl11496 397945002053 cell division protein FtsZ; Validated; Region: PRK09330 397945002054 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 397945002055 nucleotide binding site [chemical binding]; other site 397945002056 SulA interaction site; other site 397945002057 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 397945002058 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 397945002059 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 397945002060 ThiC-associated domain; Region: ThiC-associated; pfam13667 397945002061 ThiC family; Region: ThiC; cl08031 397945002062 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945002063 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002064 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002065 dimer interface [polypeptide binding]; other site 397945002066 putative CheW interface [polypeptide binding]; other site 397945002067 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945002068 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002070 dimer interface [polypeptide binding]; other site 397945002071 putative CheW interface [polypeptide binding]; other site 397945002072 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 397945002073 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 397945002074 active site 397945002075 putative DNA-binding cleft [nucleotide binding]; other site 397945002076 dimer interface [polypeptide binding]; other site 397945002077 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 397945002078 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945002079 putative acyl-acceptor binding pocket; other site 397945002080 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945002081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945002082 NMT1-like family; Region: NMT1_2; cl15260 397945002083 Cupin domain; Region: Cupin_2; cl09118 397945002084 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 397945002085 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 397945002086 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 397945002087 Helix-turn-helix domains; Region: HTH; cl00088 397945002088 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945002089 Transglycosylase; Region: Transgly; cl07896 397945002090 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 397945002091 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 397945002092 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 397945002093 NAD(P) binding site [chemical binding]; other site 397945002094 shikimate binding site; other site 397945002095 Gram-negative bacterial tonB protein; Region: TonB; cl10048 397945002096 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 397945002097 RNB domain; Region: RNB; pfam00773 397945002098 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 397945002099 O-Antigen ligase; Region: Wzy_C; cl04850 397945002100 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 397945002101 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 397945002102 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945002103 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 397945002104 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945002105 Transposase domain (DUF772); Region: DUF772; cl15789 397945002106 Transposase domain (DUF772); Region: DUF772; cl15789 397945002107 amidase; Provisional; Region: PRK07056 397945002108 Amidase; Region: Amidase; cl11426 397945002109 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 397945002110 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 397945002111 NeuB family; Region: NeuB; cl00496 397945002112 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 397945002113 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 397945002114 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 397945002115 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945002116 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945002117 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 397945002118 catalytic residues [active] 397945002119 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 397945002120 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 397945002121 carboxyltransferase (CT) interaction site; other site 397945002122 biotinylation site [posttranslational modification]; other site 397945002123 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 397945002124 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945002125 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945002126 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 397945002127 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 397945002128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002129 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 397945002130 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 397945002131 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 397945002132 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 397945002133 substrate binding site [chemical binding]; other site 397945002134 ATP binding site [chemical binding]; other site 397945002135 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 397945002136 dimer interface [polypeptide binding]; other site 397945002137 putative radical transfer pathway; other site 397945002138 diiron center [ion binding]; other site 397945002139 tyrosyl radical; other site 397945002140 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 397945002141 ATP cone domain; Region: ATP-cone; pfam03477 397945002142 ATP cone domain; Region: ATP-cone; pfam03477 397945002143 Class I ribonucleotide reductase; Region: RNR_I; cd01679 397945002144 active site 397945002145 dimer interface [polypeptide binding]; other site 397945002146 catalytic residues [active] 397945002147 effector binding site; other site 397945002148 R2 peptide binding site; other site 397945002149 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 397945002150 amidase catalytic site [active] 397945002151 Zn binding residues [ion binding]; other site 397945002152 substrate binding site [chemical binding]; other site 397945002153 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945002154 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 397945002155 active site 397945002156 phosphorylation site [posttranslational modification] 397945002157 intermolecular recognition site; other site 397945002158 dimerization interface [polypeptide binding]; other site 397945002159 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945002160 Walker A motif; other site 397945002161 ATP binding site [chemical binding]; other site 397945002162 Walker B motif; other site 397945002163 arginine finger; other site 397945002164 Helix-turn-helix domains; Region: HTH; cl00088 397945002165 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945002166 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 397945002167 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945002168 dimer interface [polypeptide binding]; other site 397945002169 phosphorylation site [posttranslational modification] 397945002170 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 397945002171 ATP binding site [chemical binding]; other site 397945002172 Mg2+ binding site [ion binding]; other site 397945002173 G-X-G motif; other site 397945002174 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 397945002175 signal recognition particle protein; Provisional; Region: PRK10867 397945002176 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 397945002177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945002178 Signal peptide binding domain; Region: SRP_SPB; pfam02978 397945002179 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 397945002180 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 397945002181 Ligand binding site; other site 397945002182 DXD motif; other site 397945002183 response regulator GlrR; Provisional; Region: PRK15115 397945002184 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 397945002185 active site 397945002186 phosphorylation site [posttranslational modification] 397945002187 intermolecular recognition site; other site 397945002188 dimerization interface [polypeptide binding]; other site 397945002189 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945002190 Walker A motif; other site 397945002191 ATP binding site [chemical binding]; other site 397945002192 Walker B motif; other site 397945002193 arginine finger; other site 397945002194 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945002195 dimer interface [polypeptide binding]; other site 397945002196 phosphorylation site [posttranslational modification] 397945002197 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 397945002198 ATP binding site [chemical binding]; other site 397945002199 Mg2+ binding site [ion binding]; other site 397945002200 G-X-G motif; other site 397945002201 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 397945002202 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 397945002203 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 397945002204 FeS/SAM binding site; other site 397945002205 TRAM domain; Region: TRAM; cl01282 397945002206 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 397945002207 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 397945002208 Flavin binding site [chemical binding]; other site 397945002209 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 397945002210 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 397945002211 active site 397945002212 dimer interface [polypeptide binding]; other site 397945002213 non-prolyl cis peptide bond; other site 397945002214 insertion regions; other site 397945002215 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945002216 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 397945002217 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945002218 Walker A motif; other site 397945002219 ATP binding site [chemical binding]; other site 397945002220 Walker B motif; other site 397945002221 arginine finger; other site 397945002222 Helix-turn-helix domains; Region: HTH; cl00088 397945002223 enoyl-CoA hydratase; Provisional; Region: PRK05862 397945002224 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 397945002225 substrate binding site [chemical binding]; other site 397945002226 oxyanion hole (OAH) forming residues; other site 397945002227 trimer interface [polypeptide binding]; other site 397945002228 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 397945002229 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 397945002230 Zn binding site [ion binding]; other site 397945002231 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 397945002232 protein binding site [polypeptide binding]; other site 397945002233 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 397945002234 dimerization domain [polypeptide binding]; other site 397945002235 dimer interface [polypeptide binding]; other site 397945002236 catalytic residues [active] 397945002237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002238 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 397945002239 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 397945002240 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 397945002241 MOSC domain; Region: MOSC; pfam03473 397945002242 GTP-binding protein YchF; Reviewed; Region: PRK09601 397945002243 YchF GTPase; Region: YchF; cd01900 397945002244 G1 box; other site 397945002245 GTP/Mg2+ binding site [chemical binding]; other site 397945002246 Switch I region; other site 397945002247 G2 box; other site 397945002248 Switch II region; other site 397945002249 G3 box; other site 397945002250 G4 box; other site 397945002251 G5 box; other site 397945002252 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 397945002253 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945002254 HPP family; Region: HPP; pfam04982 397945002255 FOG: CBS domain [General function prediction only]; Region: COG0517 397945002256 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 397945002257 Predicted permeases [General function prediction only]; Region: RarD; COG2962 397945002258 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 397945002259 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945002260 metal binding site [ion binding]; metal-binding site 397945002261 active site 397945002262 I-site; other site 397945002263 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 397945002264 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 397945002265 FMN binding site [chemical binding]; other site 397945002266 active site 397945002267 catalytic residues [active] 397945002268 substrate binding site [chemical binding]; other site 397945002269 Helix-turn-helix domains; Region: HTH; cl00088 397945002270 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 397945002271 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 397945002272 purine monophosphate binding site [chemical binding]; other site 397945002273 dimer interface [polypeptide binding]; other site 397945002274 putative catalytic residues [active] 397945002275 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 397945002276 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 397945002277 Pectate lyase; Region: Pectate_lyase; pfam03211 397945002278 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 397945002279 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 397945002280 inhibitor-cofactor binding pocket; inhibition site 397945002281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002282 catalytic residue [active] 397945002283 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; Region: ribokinase_pfkB_like; cl00192 397945002284 substrate binding site [chemical binding]; other site 397945002285 ATP binding site [chemical binding]; other site 397945002286 Rubredoxin [Energy production and conversion]; Region: COG1773 397945002287 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 397945002288 iron binding site [ion binding]; other site 397945002289 Response regulator receiver domain; Region: Response_reg; pfam00072 397945002290 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 397945002291 active site 397945002292 phosphorylation site [posttranslational modification] 397945002293 intermolecular recognition site; other site 397945002294 dimerization interface [polypeptide binding]; other site 397945002295 Response regulator receiver domain; Region: Response_reg; pfam00072 397945002296 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 397945002297 active site 397945002298 phosphorylation site [posttranslational modification] 397945002299 intermolecular recognition site; other site 397945002300 dimerization interface [polypeptide binding]; other site 397945002301 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 397945002302 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 397945002303 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002304 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002305 dimer interface [polypeptide binding]; other site 397945002306 putative CheW interface [polypeptide binding]; other site 397945002307 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 397945002308 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 397945002309 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 397945002310 putative binding surface; other site 397945002311 active site 397945002312 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 397945002313 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 397945002314 ATP binding site [chemical binding]; other site 397945002315 Mg2+ binding site [ion binding]; other site 397945002316 G-X-G motif; other site 397945002317 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 397945002318 Response regulator receiver domain; Region: Response_reg; pfam00072 397945002319 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 397945002320 active site 397945002321 phosphorylation site [posttranslational modification] 397945002322 intermolecular recognition site; other site 397945002323 dimerization interface [polypeptide binding]; other site 397945002324 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 397945002325 DNA photolyase; Region: DNA_photolyase; pfam00875 397945002326 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 397945002327 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 397945002328 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 397945002329 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945002330 active site 397945002331 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 397945002332 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 397945002333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002334 dihydroorotase; Provisional; Region: PRK07627 397945002335 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 397945002336 active site 397945002337 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 397945002338 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945002339 putative acyl-acceptor binding pocket; other site 397945002340 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 397945002341 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 397945002342 Walker A/P-loop; other site 397945002343 ATP binding site [chemical binding]; other site 397945002344 Q-loop/lid; other site 397945002345 ABC transporter signature motif; other site 397945002346 Walker B; other site 397945002347 D-loop; other site 397945002348 H-loop/switch region; other site 397945002349 TOBE domain; Region: TOBE_2; cl01440 397945002350 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 397945002351 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 397945002352 ArsC family; Region: ArsC; pfam03960 397945002353 catalytic residues [active] 397945002354 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 397945002355 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945002356 Walker A motif; other site 397945002357 ATP binding site [chemical binding]; other site 397945002358 Walker B motif; other site 397945002359 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 397945002360 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002361 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002362 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002363 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 397945002364 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945002365 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 397945002366 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 397945002367 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 397945002368 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 397945002369 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 397945002370 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 397945002371 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 397945002372 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 397945002373 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 397945002374 threonine dehydratase; Reviewed; Region: PRK09224 397945002375 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 397945002376 tetramer interface [polypeptide binding]; other site 397945002377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002378 catalytic residue [active] 397945002379 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 397945002380 putative Ile/Val binding site [chemical binding]; other site 397945002381 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 397945002382 putative Ile/Val binding site [chemical binding]; other site 397945002383 OsmC-like protein; Region: OsmC; cl00767 397945002384 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 397945002385 diiron binding motif [ion binding]; other site 397945002386 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945002387 trimer interface [polypeptide binding]; other site 397945002388 eyelet of channel; other site 397945002389 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945002390 trimer interface [polypeptide binding]; other site 397945002391 eyelet of channel; other site 397945002392 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 397945002393 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945002394 dimer interface [polypeptide binding]; other site 397945002395 conserved gate region; other site 397945002396 putative PBP binding loops; other site 397945002397 ABC-ATPase subunit interface; other site 397945002398 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945002399 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945002400 metal binding site [ion binding]; metal-binding site 397945002401 putative dimer interface [polypeptide binding]; other site 397945002402 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 397945002403 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_2; cd08498 397945002404 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 397945002405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945002406 dimer interface [polypeptide binding]; other site 397945002407 conserved gate region; other site 397945002408 putative PBP binding loops; other site 397945002409 ABC-ATPase subunit interface; other site 397945002410 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 397945002411 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 397945002412 Walker A/P-loop; other site 397945002413 ATP binding site [chemical binding]; other site 397945002414 Q-loop/lid; other site 397945002415 ABC transporter signature motif; other site 397945002416 Walker B; other site 397945002417 D-loop; other site 397945002418 H-loop/switch region; other site 397945002419 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945002420 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 397945002421 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 397945002422 Walker A/P-loop; other site 397945002423 ATP binding site [chemical binding]; other site 397945002424 Q-loop/lid; other site 397945002425 ABC transporter signature motif; other site 397945002426 Walker B; other site 397945002427 D-loop; other site 397945002428 H-loop/switch region; other site 397945002429 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945002430 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945002431 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945002432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002433 dimer interface [polypeptide binding]; other site 397945002434 putative CheW interface [polypeptide binding]; other site 397945002435 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 397945002436 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 397945002437 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 397945002438 putative active site [active] 397945002439 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 397945002440 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 397945002441 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 397945002442 transaldolase-like protein; Provisional; Region: PTZ00411 397945002443 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 397945002444 active site 397945002445 dimer interface [polypeptide binding]; other site 397945002446 catalytic residue [active] 397945002447 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 397945002448 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 397945002449 active site 397945002450 dimer interface [polypeptide binding]; other site 397945002451 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 397945002452 dimer interface [polypeptide binding]; other site 397945002453 active site 397945002454 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 397945002455 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 397945002456 ring oligomerisation interface [polypeptide binding]; other site 397945002457 ATP/Mg binding site [chemical binding]; other site 397945002458 stacking interactions; other site 397945002459 hinge regions; other site 397945002460 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 397945002461 oligomerisation interface [polypeptide binding]; other site 397945002462 mobile loop; other site 397945002463 roof hairpin; other site 397945002464 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 397945002465 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 397945002466 Substrate binding site; other site 397945002467 Cupin domain; Region: Cupin_2; cl09118 397945002468 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 397945002469 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 397945002470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002472 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 397945002473 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 397945002474 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 397945002475 putative trimer interface [polypeptide binding]; other site 397945002476 putative active site [active] 397945002477 putative substrate binding site [chemical binding]; other site 397945002478 putative CoA binding site [chemical binding]; other site 397945002479 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 397945002480 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 397945002481 inhibitor-cofactor binding pocket; inhibition site 397945002482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002483 catalytic residue [active] 397945002484 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 397945002485 active site 397945002486 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 397945002487 homodimer interface [polypeptide binding]; other site 397945002488 ABC-2 type transporter; Region: ABC2_membrane; cl11417 397945002489 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 397945002490 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 397945002491 Walker A/P-loop; other site 397945002492 ATP binding site [chemical binding]; other site 397945002493 Q-loop/lid; other site 397945002494 ABC transporter signature motif; other site 397945002495 Walker B; other site 397945002496 D-loop; other site 397945002497 H-loop/switch region; other site 397945002498 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 397945002499 putative carbohydrate binding site [chemical binding]; other site 397945002500 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 397945002501 S-adenosylmethionine binding site [chemical binding]; other site 397945002502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002503 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 397945002504 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 397945002505 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002506 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 397945002507 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002508 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 397945002509 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 397945002510 active site 397945002511 dimer interface [polypeptide binding]; other site 397945002512 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 397945002513 Ligand Binding Site [chemical binding]; other site 397945002514 Molecular Tunnel; other site 397945002515 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 397945002516 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 397945002517 active site 397945002518 dimer interface [polypeptide binding]; other site 397945002519 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 397945002520 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 397945002521 Ligand Binding Site [chemical binding]; other site 397945002522 Molecular Tunnel; other site 397945002523 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 397945002524 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 397945002525 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002526 putative ADP-binding pocket [chemical binding]; other site 397945002527 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002528 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 397945002529 putative ADP-binding pocket [chemical binding]; other site 397945002530 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 397945002531 Ligand binding site; other site 397945002532 Putative Catalytic site; other site 397945002533 DXD motif; other site 397945002534 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 397945002535 binding surface 397945002536 TPR motif; other site 397945002537 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 397945002538 binding surface 397945002539 TPR motif; other site 397945002540 Tetratricopeptide repeat; Region: TPR_16; pfam13432 397945002541 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 397945002542 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 397945002543 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 397945002544 homodimer interface [polypeptide binding]; other site 397945002545 active site 397945002546 FMN binding site [chemical binding]; other site 397945002547 substrate binding site [chemical binding]; other site 397945002548 4Fe-4S binding domain; Region: Fer4; cl02805 397945002549 4Fe-4S binding domain; Region: Fer4; cl02805 397945002550 Sodium:solute symporter family; Region: SSF; cl00456 397945002551 phenylhydantoinase; Validated; Region: PRK08323 397945002552 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 397945002553 tetramer interface [polypeptide binding]; other site 397945002554 active site 397945002555 allantoate amidohydrolase; Reviewed; Region: PRK12893 397945002556 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 397945002557 active site 397945002558 metal binding site [ion binding]; metal-binding site 397945002559 dimer interface [polypeptide binding]; other site 397945002560 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 397945002561 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 397945002562 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945002563 active site 397945002564 nucleotide binding site [chemical binding]; other site 397945002565 HIGH motif; other site 397945002566 KMSKS motif; other site 397945002567 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 397945002568 nudix motif; other site 397945002569 NAD synthetase; Provisional; Region: PRK13981 397945002570 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 397945002571 multimer interface [polypeptide binding]; other site 397945002572 active site 397945002573 catalytic triad [active] 397945002574 protein interface 1 [polypeptide binding]; other site 397945002575 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 397945002576 homodimer interface [polypeptide binding]; other site 397945002577 NAD binding pocket [chemical binding]; other site 397945002578 ATP binding pocket [chemical binding]; other site 397945002579 Mg binding site [ion binding]; other site 397945002580 active-site loop [active] 397945002581 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 397945002582 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 397945002583 active site 397945002584 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 397945002585 catalytic triad [active] 397945002586 conserved cis-peptide bond; other site 397945002587 S-adenosylmethionine synthetase; Validated; Region: PRK05250 397945002588 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 397945002589 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 397945002590 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 397945002591 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 397945002592 putative acyl-acceptor binding pocket; other site 397945002593 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 397945002594 putative acyl-acceptor binding pocket; other site 397945002595 short chain dehydrogenase; Validated; Region: PRK05855 397945002596 Predicted GTPase [General function prediction only]; Region: COG0218 397945002597 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 397945002598 G1 box; other site 397945002599 GTP/Mg2+ binding site [chemical binding]; other site 397945002600 Switch I region; other site 397945002601 G2 box; other site 397945002602 G3 box; other site 397945002603 Switch II region; other site 397945002604 G4 box; other site 397945002605 G5 box; other site 397945002606 Cytochrome c; Region: Cytochrom_C; cl11414 397945002607 Cytochrome c; Region: Cytochrom_C; cl11414 397945002608 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 397945002609 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 397945002610 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 397945002611 TMAO/DMSO reductase; Reviewed; Region: PRK05363 397945002612 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 397945002613 Moco binding site; other site 397945002614 metal coordination site [ion binding]; other site 397945002615 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 397945002616 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945002617 diaminopimelate decarboxylase; Region: lysA; TIGR01048 397945002618 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 397945002619 active site 397945002620 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945002621 substrate binding site [chemical binding]; other site 397945002622 catalytic residues [active] 397945002623 dimer interface [polypeptide binding]; other site 397945002624 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 397945002625 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 397945002626 putative iron binding site [ion binding]; other site 397945002627 Transglycosylase; Region: Transgly; cl07896 397945002628 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945002629 Competence protein A; Region: Competence_A; pfam11104 397945002630 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 397945002631 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 397945002632 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 397945002633 Pilus assembly protein, PilO; Region: PilO; cl01234 397945002634 Pilus assembly protein, PilP; Region: PilP; cl01235 397945002635 AMIN domain; Region: AMIN; pfam11741 397945002636 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 397945002637 Secretin and TonB N terminus short domain; Region: STN; cl06624 397945002638 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945002639 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945002640 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 397945002641 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 397945002642 shikimate kinase; Reviewed; Region: aroK; PRK00131 397945002643 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 397945002644 ADP binding site [chemical binding]; other site 397945002645 magnesium binding site [ion binding]; other site 397945002646 putative shikimate binding site; other site 397945002647 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 397945002648 active site 397945002649 dimer interface [polypeptide binding]; other site 397945002650 metal binding site [ion binding]; metal-binding site 397945002651 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 397945002652 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 397945002653 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 397945002654 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 397945002655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002656 Methyltransferase domain; Region: Methyltransf_31; pfam13847 397945002657 Transposase IS200 like; Region: Y1_Tnp; cl00848 397945002658 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 397945002659 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 397945002660 active site 397945002661 dimer interface [polypeptide binding]; other site 397945002662 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 397945002663 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 397945002664 active site 397945002665 FMN binding site [chemical binding]; other site 397945002666 substrate binding site [chemical binding]; other site 397945002667 3Fe-4S cluster binding site [ion binding]; other site 397945002668 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 397945002669 domain interface; other site 397945002670 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 397945002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002672 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945002673 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945002674 substrate binding pocket [chemical binding]; other site 397945002675 membrane-bound complex binding site; other site 397945002676 hinge residues; other site 397945002677 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 397945002678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945002679 dimer interface [polypeptide binding]; other site 397945002680 conserved gate region; other site 397945002681 putative PBP binding loops; other site 397945002682 ABC-ATPase subunit interface; other site 397945002683 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945002684 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 397945002685 Walker A/P-loop; other site 397945002686 ATP binding site [chemical binding]; other site 397945002687 Q-loop/lid; other site 397945002688 ABC transporter signature motif; other site 397945002689 Walker B; other site 397945002690 D-loop; other site 397945002691 H-loop/switch region; other site 397945002692 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 397945002693 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 397945002694 Walker A/P-loop; other site 397945002695 ATP binding site [chemical binding]; other site 397945002696 Q-loop/lid; other site 397945002697 ABC transporter signature motif; other site 397945002698 Walker B; other site 397945002699 D-loop; other site 397945002700 H-loop/switch region; other site 397945002701 Permease; Region: Permease; cl00510 397945002702 mce related protein; Region: MCE; pfam02470 397945002703 VacJ like lipoprotein; Region: VacJ; cl01073 397945002704 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 397945002705 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 397945002706 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 397945002707 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 397945002708 Walker A/P-loop; other site 397945002709 ATP binding site [chemical binding]; other site 397945002710 Q-loop/lid; other site 397945002711 ABC transporter signature motif; other site 397945002712 Walker B; other site 397945002713 D-loop; other site 397945002714 H-loop/switch region; other site 397945002715 ABC-2 type transporter; Region: ABC2_membrane; cl11417 397945002716 BolA-like protein; Region: BolA; cl00386 397945002717 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 397945002718 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 397945002719 hinge; other site 397945002720 active site 397945002721 ATP phosphoribosyltransferase; Region: HisG; cl15266 397945002722 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 397945002723 histidinol dehydrogenase; Region: hisD; TIGR00069 397945002724 NAD binding site [chemical binding]; other site 397945002725 dimerization interface [polypeptide binding]; other site 397945002726 product binding site; other site 397945002727 substrate binding site [chemical binding]; other site 397945002728 zinc binding site [ion binding]; other site 397945002729 catalytic residues [active] 397945002730 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 397945002731 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 397945002732 putative active site [active] 397945002733 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 397945002734 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 397945002735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945002736 homodimer interface [polypeptide binding]; other site 397945002737 catalytic residue [active] 397945002738 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 397945002739 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 397945002740 putative active site pocket [active] 397945002741 4-fold oligomerization interface [polypeptide binding]; other site 397945002742 metal binding residues [ion binding]; metal-binding site 397945002743 3-fold/trimer interface [polypeptide binding]; other site 397945002744 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 397945002745 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 397945002746 putative active site [active] 397945002747 oxyanion strand; other site 397945002748 catalytic triad [active] 397945002749 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 397945002750 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 397945002751 catalytic residues [active] 397945002752 Spherulation-specific family 4; Region: Spherulin4; pfam12138 397945002753 Spherulation-specific family 4; Region: Spherulin4; pfam12138 397945002754 Predicted membrane protein [Function unknown]; Region: COG4267 397945002755 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 397945002756 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945002757 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 397945002758 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 397945002759 GAF domain; Region: GAF; cl15785 397945002760 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 397945002761 TolB amino-terminal domain; Region: TolB_N; cl00639 397945002762 Tetratricopeptide repeat; Region: TPR_15; pfam13429 397945002763 TM1410 hypothetical-related protein; Region: DUF297; cl00997 397945002764 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 397945002765 putative active site [active] 397945002766 UDP-glucose 4-epimerase; Region: PLN02240 397945002767 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 397945002768 NAD binding site [chemical binding]; other site 397945002769 homodimer interface [polypeptide binding]; other site 397945002770 active site 397945002771 substrate binding site [chemical binding]; other site 397945002772 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 397945002773 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 397945002774 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 397945002775 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 397945002776 active site 397945002777 phosphate binding residues; other site 397945002778 catalytic residues [active] 397945002779 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 397945002780 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 397945002781 substrate binding site [chemical binding]; other site 397945002782 glutamase interaction surface [polypeptide binding]; other site 397945002783 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 397945002784 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 397945002785 Predicted membrane protein [Function unknown]; Region: COG3671 397945002786 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 397945002787 active site 397945002788 nucleophile elbow; other site 397945002789 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 397945002790 nucleotide binding site/active site [active] 397945002791 HIT family signature motif; other site 397945002792 catalytic residue [active] 397945002793 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 397945002794 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 397945002795 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 397945002796 metabolite-proton symporter; Region: 2A0106; TIGR00883 397945002797 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 397945002798 putative substrate translocation pore; other site 397945002799 Uncharacterized conserved protein [Function unknown]; Region: COG0327 397945002800 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 397945002801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 397945002802 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 397945002803 metal ion-dependent adhesion site (MIDAS); other site 397945002804 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 397945002805 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 397945002806 MoxR-like ATPases [General function prediction only]; Region: COG0714 397945002807 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945002808 Walker A motif; other site 397945002809 ATP binding site [chemical binding]; other site 397945002810 Walker B motif; other site 397945002811 arginine finger; other site 397945002812 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 397945002813 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 397945002814 active site 397945002815 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 397945002816 putative active site [active] 397945002817 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; cl15754 397945002818 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 397945002819 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 397945002820 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945002821 Walker A motif; other site 397945002822 ATP binding site [chemical binding]; other site 397945002823 Walker B motif; other site 397945002824 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945002825 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 397945002826 Helix-turn-helix domains; Region: HTH; cl00088 397945002827 Integrase core domain; Region: rve; cl01316 397945002828 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945002829 Integrase core domain; Region: rve_3; cl15866 397945002830 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 397945002831 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 397945002832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002833 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 397945002834 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 397945002835 EamA-like transporter family; Region: EamA; cl01037 397945002836 EamA-like transporter family; Region: EamA; cl01037 397945002837 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 397945002838 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 397945002839 putative NAD(P) binding site [chemical binding]; other site 397945002840 putative active site [active] 397945002841 Cache domain; Region: Cache_1; pfam02743 397945002842 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945002843 dimerization interface [polypeptide binding]; other site 397945002844 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002845 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002846 dimer interface [polypeptide binding]; other site 397945002847 putative CheW interface [polypeptide binding]; other site 397945002848 UreD urease accessory protein; Region: UreD; cl00530 397945002849 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 397945002850 nucleoside/Zn binding site; other site 397945002851 dimer interface [polypeptide binding]; other site 397945002852 catalytic motif [active] 397945002853 NMT1-like family; Region: NMT1_2; cl15260 397945002854 NMT1/THI5 like; Region: NMT1; pfam09084 397945002855 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 397945002856 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 397945002857 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 397945002858 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 397945002859 rRNA binding site [nucleotide binding]; other site 397945002860 predicted 30S ribosome binding site; other site 397945002861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945002862 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 397945002863 NAD(P) binding site [chemical binding]; other site 397945002864 active site 397945002865 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945002866 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945002867 dimer interface [polypeptide binding]; other site 397945002868 conserved gate region; other site 397945002869 putative PBP binding loops; other site 397945002870 ABC-ATPase subunit interface; other site 397945002871 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945002872 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 397945002873 Walker A/P-loop; other site 397945002874 ATP binding site [chemical binding]; other site 397945002875 Q-loop/lid; other site 397945002876 ABC transporter signature motif; other site 397945002877 Walker B; other site 397945002878 D-loop; other site 397945002879 H-loop/switch region; other site 397945002880 NMT1/THI5 like; Region: NMT1; pfam09084 397945002881 NMT1-like family; Region: NMT1_2; cl15260 397945002882 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 397945002883 dimer interface [polypeptide binding]; other site 397945002884 catalytic motif [active] 397945002885 nucleoside/Zn binding site; other site 397945002886 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 397945002887 Malic enzyme, N-terminal domain; Region: malic; pfam00390 397945002888 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 397945002889 putative NAD(P) binding site [chemical binding]; other site 397945002890 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 397945002891 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945002892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945002893 DNA-binding site [nucleotide binding]; DNA binding site 397945002894 FCD domain; Region: FCD; cl11656 397945002895 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945002896 Sodium:solute symporter family; Region: SSF; cl00456 397945002897 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945002898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945002899 DNA-binding site [nucleotide binding]; DNA binding site 397945002900 FCD domain; Region: FCD; cl11656 397945002901 Cache domain; Region: Cache_1; pfam02743 397945002902 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945002903 dimerization interface [polypeptide binding]; other site 397945002904 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945002905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945002906 dimer interface [polypeptide binding]; other site 397945002907 putative CheW interface [polypeptide binding]; other site 397945002908 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 397945002909 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 397945002910 Helix-turn-helix domains; Region: HTH; cl00088 397945002911 Integrase core domain; Region: rve; cl01316 397945002912 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945002913 Integrase core domain; Region: rve_3; cl15866 397945002914 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 397945002915 DNA polymerase; Provisional; Region: 43; PHA02528 397945002916 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 397945002917 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 397945002918 putative metal binding site [ion binding]; other site 397945002919 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 397945002920 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 397945002921 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 397945002922 active site 397945002923 metal binding site [ion binding]; metal-binding site 397945002924 dimer interface [polypeptide binding]; other site 397945002925 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 397945002926 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 397945002927 active site 397945002928 catalytic site [active] 397945002929 tetramer interface [polypeptide binding]; other site 397945002930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945002931 DNA-binding site [nucleotide binding]; DNA binding site 397945002932 FCD domain; Region: FCD; cl11656 397945002933 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 397945002934 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 397945002935 MOFRL family; Region: MOFRL; pfam05161 397945002936 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 397945002937 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945002938 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945002939 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945002940 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 397945002941 active site 397945002942 homotetramer interface [polypeptide binding]; other site 397945002943 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 397945002944 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 397945002945 XdhC Rossmann domain; Region: XdhC_C; pfam13478 397945002946 Predicted membrane protein [Function unknown]; Region: COG3748 397945002947 Protein of unknown function (DUF989); Region: DUF989; pfam06181 397945002948 Cytochrome c; Region: Cytochrom_C; cl11414 397945002949 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 397945002950 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 397945002951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945002952 metal binding site [ion binding]; metal-binding site 397945002953 active site 397945002954 I-site; other site 397945002955 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945002956 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 397945002957 active site 397945002958 phosphorylation site [posttranslational modification] 397945002959 intermolecular recognition site; other site 397945002960 dimerization interface [polypeptide binding]; other site 397945002961 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945002962 DNA binding residues [nucleotide binding] 397945002963 dimerization interface [polypeptide binding]; other site 397945002964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 397945002965 Cache domain; Region: Cache_2; cl07034 397945002966 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 397945002967 ATP binding site [chemical binding]; other site 397945002968 Mg2+ binding site [ion binding]; other site 397945002969 G-X-G motif; other site 397945002970 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 397945002971 homotrimer interaction site [polypeptide binding]; other site 397945002972 putative active site [active] 397945002973 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 397945002974 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 397945002975 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945002976 catalytic residue [active] 397945002977 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945002978 trimer interface [polypeptide binding]; other site 397945002979 eyelet of channel; other site 397945002980 PAS domain; Region: PAS_9; pfam13426 397945002981 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 397945002982 putative active site [active] 397945002983 heme pocket [chemical binding]; other site 397945002984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945002985 metal binding site [ion binding]; metal-binding site 397945002986 active site 397945002987 I-site; other site 397945002988 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 397945002989 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 397945002990 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945002991 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 397945002992 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 397945002993 catalytic loop [active] 397945002994 iron binding site [ion binding]; other site 397945002995 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 397945002996 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 397945002997 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 397945002998 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 397945002999 Walker A/P-loop; other site 397945003000 ATP binding site [chemical binding]; other site 397945003001 Q-loop/lid; other site 397945003002 ABC transporter signature motif; other site 397945003003 Walker B; other site 397945003004 D-loop; other site 397945003005 H-loop/switch region; other site 397945003006 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 397945003007 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 397945003008 TM-ABC transporter signature motif; other site 397945003009 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 397945003010 TM-ABC transporter signature motif; other site 397945003011 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 397945003012 putative ligand binding site [chemical binding]; other site 397945003013 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 397945003014 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 397945003015 [2Fe-2S] cluster binding site [ion binding]; other site 397945003016 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 397945003017 hydrophobic ligand binding site; other site 397945003018 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 397945003019 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 397945003020 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 397945003021 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 397945003022 active site 397945003023 purine riboside binding site [chemical binding]; other site 397945003024 Penicillin amidase; Region: Penicil_amidase; pfam01804 397945003025 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 397945003026 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 397945003027 active site 397945003028 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 397945003029 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 397945003030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003031 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 397945003032 putative ligand binding site [chemical binding]; other site 397945003033 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 397945003034 trimer interface [polypeptide binding]; other site 397945003035 active site 397945003036 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 397945003037 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 397945003038 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 397945003039 ATP binding site [chemical binding]; other site 397945003040 Mg++ binding site [ion binding]; other site 397945003041 motif III; other site 397945003042 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 397945003043 nucleotide binding region [chemical binding]; other site 397945003044 ATP-binding site [chemical binding]; other site 397945003045 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 397945003046 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 397945003047 active site 397945003048 metal binding site [ion binding]; metal-binding site 397945003049 H-NS histone family; Region: Histone_HNS; pfam00816 397945003050 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 397945003051 aconitate hydratase; Validated; Region: PRK09277 397945003052 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 397945003053 substrate binding site [chemical binding]; other site 397945003054 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 397945003055 ligand binding site [chemical binding]; other site 397945003056 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 397945003057 substrate binding site [chemical binding]; other site 397945003058 PAS fold; Region: PAS_3; pfam08447 397945003059 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 397945003060 PAS fold; Region: PAS_4; pfam08448 397945003061 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 397945003062 putative active site [active] 397945003063 heme pocket [chemical binding]; other site 397945003064 PAS fold; Region: PAS_4; pfam08448 397945003065 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 397945003066 putative active site [active] 397945003067 heme pocket [chemical binding]; other site 397945003068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945003069 metal binding site [ion binding]; metal-binding site 397945003070 active site 397945003071 I-site; other site 397945003072 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 397945003073 PAS fold; Region: PAS_7; pfam12860 397945003074 PAS domain S-box; Region: sensory_box; TIGR00229 397945003075 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 397945003076 putative active site [active] 397945003077 heme pocket [chemical binding]; other site 397945003078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945003079 metal binding site [ion binding]; metal-binding site 397945003080 active site 397945003081 I-site; other site 397945003082 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 397945003083 salicylate hydroxylase; Provisional; Region: PRK06475 397945003084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003085 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 397945003086 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 397945003087 kynureninase; Region: kynureninase; TIGR01814 397945003088 Putative cyclase; Region: Cyclase; cl00814 397945003089 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945003090 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 397945003091 putative DNA binding site [nucleotide binding]; other site 397945003092 putative Zn2+ binding site [ion binding]; other site 397945003093 Helix-turn-helix domains; Region: HTH; cl00088 397945003094 Flagellin N-methylase; Region: FliB; cl00497 397945003095 FeoA domain; Region: FeoA; cl00838 397945003096 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 397945003097 G1 box; other site 397945003098 GTP/Mg2+ binding site [chemical binding]; other site 397945003099 Switch I region; other site 397945003100 G2 box; other site 397945003101 G3 box; other site 397945003102 Switch II region; other site 397945003103 G4 box; other site 397945003104 G5 box; other site 397945003105 Nucleoside recognition; Region: Gate; cl00486 397945003106 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 397945003107 Nucleoside recognition; Region: Gate; cl00486 397945003108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 397945003109 ornithine carbamoyltransferase; Provisional; Region: PRK00779 397945003110 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 397945003111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003112 acetylornithine aminotransferase; Provisional; Region: PRK02627 397945003113 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 397945003114 inhibitor-cofactor binding pocket; inhibition site 397945003115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003116 catalytic residue [active] 397945003117 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 397945003118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003119 Predicted dehydrogenase [General function prediction only]; Region: COG0579 397945003120 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 397945003121 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 397945003122 Uncharacterized conserved protein [Function unknown]; Region: COG2912 397945003123 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 397945003124 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 397945003125 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 397945003126 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 397945003127 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 397945003128 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 397945003129 Protein of unknown function (DUF328); Region: DUF328; cl01143 397945003130 ribonuclease E; Reviewed; Region: rne; PRK10811 397945003131 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 397945003132 homodimer interface [polypeptide binding]; other site 397945003133 oligonucleotide binding site [chemical binding]; other site 397945003134 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 397945003135 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 397945003136 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 397945003137 active site 397945003138 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 397945003139 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 397945003140 motif II; other site 397945003141 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 397945003142 iron-sulfur cluster [ion binding]; other site 397945003143 [2Fe-2S] cluster binding site [ion binding]; other site 397945003144 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 397945003145 tandem repeat interface [polypeptide binding]; other site 397945003146 oligomer interface [polypeptide binding]; other site 397945003147 active site residues [active] 397945003148 Predicted methyltransferases [General function prediction only]; Region: COG0313 397945003149 Maf-like protein; Region: Maf; pfam02545 397945003150 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 397945003151 active site 397945003152 dimer interface [polypeptide binding]; other site 397945003153 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 397945003154 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 397945003155 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 397945003156 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 397945003157 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 397945003158 dimer interface [polypeptide binding]; other site 397945003159 active site 397945003160 CoA binding pocket [chemical binding]; other site 397945003161 Acyl transferase domain; Region: Acyl_transf_1; cl08282 397945003162 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 397945003163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003164 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 397945003165 NAD(P) binding site [chemical binding]; other site 397945003166 active site 397945003167 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945003168 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 397945003169 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 397945003170 dimer interface [polypeptide binding]; other site 397945003171 active site 397945003172 Protein of unknown function (DUF1681); Region: DUF1681; pfam07933 397945003173 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 397945003174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945003175 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945003176 DNA binding residues [nucleotide binding] 397945003177 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 397945003178 MucB/RseB family; Region: MucB_RseB; pfam03888 397945003179 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 397945003180 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 397945003181 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 397945003182 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 397945003183 protein binding site [polypeptide binding]; other site 397945003184 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 397945003185 protein binding site [polypeptide binding]; other site 397945003186 GTP-binding protein LepA; Provisional; Region: PRK05433 397945003187 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 397945003188 G1 box; other site 397945003189 putative GEF interaction site [polypeptide binding]; other site 397945003190 GTP/Mg2+ binding site [chemical binding]; other site 397945003191 Switch I region; other site 397945003192 G2 box; other site 397945003193 G3 box; other site 397945003194 Switch II region; other site 397945003195 G4 box; other site 397945003196 G5 box; other site 397945003197 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 to...; Region: Translation_Factor_II_like; cl02787 397945003198 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 397945003199 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 397945003200 signal peptidase I; Provisional; Region: PRK10861 397945003201 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 397945003202 Catalytic site [active] 397945003203 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 397945003204 ribonuclease III; Reviewed; Region: rnc; PRK00102 397945003205 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 397945003206 dimerization interface [polypeptide binding]; other site 397945003207 active site 397945003208 metal binding site [ion binding]; metal-binding site 397945003209 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 397945003210 dsRNA binding site [nucleotide binding]; other site 397945003211 GTPase Era; Reviewed; Region: era; PRK00089 397945003212 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 397945003213 G1 box; other site 397945003214 GTP/Mg2+ binding site [chemical binding]; other site 397945003215 Switch I region; other site 397945003216 G2 box; other site 397945003217 Switch II region; other site 397945003218 G3 box; other site 397945003219 G4 box; other site 397945003220 G5 box; other site 397945003221 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 that...; Region: KH-I; cl00098 397945003222 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 397945003223 Recombination protein O N terminal; Region: RecO_N; cl15812 397945003224 Recombination protein O C terminal; Region: RecO_C; pfam02565 397945003225 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 397945003226 active site 397945003227 hydrophilic channel; other site 397945003228 dimerization interface [polypeptide binding]; other site 397945003229 catalytic residues [active] 397945003230 active site lid [active] 397945003231 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 397945003232 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 397945003233 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 397945003234 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945003235 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 397945003236 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 397945003237 dimer interface [polypeptide binding]; other site 397945003238 putative anticodon binding site; other site 397945003239 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 397945003240 motif 1; other site 397945003241 active site 397945003242 motif 2; other site 397945003243 motif 3; other site 397945003244 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945003245 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 397945003246 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 397945003247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003248 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 397945003249 Bacterial sugar transferase; Region: Bac_transf; cl00939 397945003250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945003251 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 397945003252 putative ADP-binding pocket [chemical binding]; other site 397945003253 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 397945003254 YGGT family; Region: YGGT; cl00508 397945003255 YGGT family; Region: YGGT; cl00508 397945003256 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 397945003257 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 397945003258 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 397945003259 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 397945003260 substrate binding site [chemical binding]; other site 397945003261 active site 397945003262 catalytic residues [active] 397945003263 heterodimer interface [polypeptide binding]; other site 397945003264 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 397945003265 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 397945003266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003267 catalytic residue [active] 397945003268 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 397945003269 active site 397945003270 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 397945003271 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 397945003272 dimerization interface 3.5A [polypeptide binding]; other site 397945003273 active site 397945003274 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 397945003275 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 397945003276 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 397945003277 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 397945003278 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 397945003279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003280 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 397945003281 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 397945003282 classical (c) SDRs; Region: SDR_c; cd05233 397945003283 NAD(P) binding site [chemical binding]; other site 397945003284 active site 397945003285 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 397945003286 tartrate dehydrogenase; Provisional; Region: PRK08194 397945003287 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 397945003288 substrate binding site [chemical binding]; other site 397945003289 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 397945003290 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 397945003291 substrate binding site [chemical binding]; other site 397945003292 ligand binding site [chemical binding]; other site 397945003293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945003294 Helix-turn-helix domains; Region: HTH; cl00088 397945003295 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 397945003296 putative dimerization interface [polypeptide binding]; other site 397945003297 chaperone protein DnaJ; Provisional; Region: PRK10767 397945003298 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 397945003299 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 397945003300 substrate binding site [polypeptide binding]; other site 397945003301 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 397945003302 Zn binding sites [ion binding]; other site 397945003303 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 397945003304 dimer interface [polypeptide binding]; other site 397945003305 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 397945003306 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 397945003307 dimer interface [polypeptide binding]; other site 397945003308 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 397945003309 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 397945003310 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 397945003311 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 397945003312 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 397945003313 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 397945003314 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 397945003315 replicative DNA helicase; Region: DnaB; TIGR00665 397945003316 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 397945003317 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 397945003318 Walker A motif; other site 397945003319 ATP binding site [chemical binding]; other site 397945003320 Walker B motif; other site 397945003321 DNA binding loops [nucleotide binding] 397945003322 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 397945003323 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 397945003324 putative active site [active] 397945003325 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003326 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 397945003327 catalytic triad [active] 397945003328 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 397945003329 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 397945003330 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 397945003331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003332 homodimer interface [polypeptide binding]; other site 397945003333 catalytic residue [active] 397945003334 homoserine dehydrogenase; Provisional; Region: PRK06349 397945003335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003336 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 397945003337 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 397945003338 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 397945003339 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 397945003340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003341 catalytic residue [active] 397945003342 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 397945003343 Walker A motif; other site 397945003344 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 397945003345 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 397945003346 dimer interface [polypeptide binding]; other site 397945003347 putative functional site; other site 397945003348 putative MPT binding site; other site 397945003349 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 397945003350 MoaE interaction surface [polypeptide binding]; other site 397945003351 MoeB interaction surface [polypeptide binding]; other site 397945003352 thiocarboxylated glycine; other site 397945003353 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 397945003354 dimer interface [polypeptide binding]; other site 397945003355 active site 397945003356 catalytic residue [active] 397945003357 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 397945003358 MoaE homodimer interface [polypeptide binding]; other site 397945003359 MoaD interaction [polypeptide binding]; other site 397945003360 active site residues [active] 397945003361 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 397945003362 Clp amino terminal domain; Region: Clp_N; pfam02861 397945003363 Clp amino terminal domain; Region: Clp_N; pfam02861 397945003364 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945003365 Walker A motif; other site 397945003366 ATP binding site [chemical binding]; other site 397945003367 Walker B motif; other site 397945003368 arginine finger; other site 397945003369 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945003370 Walker A motif; other site 397945003371 ATP binding site [chemical binding]; other site 397945003372 Walker B motif; other site 397945003373 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 397945003374 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945003375 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 397945003376 NAD(P) binding site [chemical binding]; other site 397945003377 catalytic residues [active] 397945003378 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 397945003379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945003380 Coenzyme A binding pocket [chemical binding]; other site 397945003381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003382 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 397945003383 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 397945003384 FMN binding site [chemical binding]; other site 397945003385 active site 397945003386 catalytic residues [active] 397945003387 substrate binding site [chemical binding]; other site 397945003388 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 397945003389 putative active site [active] 397945003390 catalytic site [active] 397945003391 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 397945003392 PLD-like domain; Region: PLDc_2; pfam13091 397945003393 putative active site [active] 397945003394 catalytic site [active] 397945003395 aspartate aminotransferase; Provisional; Region: PRK06108 397945003396 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 397945003397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945003398 homodimer interface [polypeptide binding]; other site 397945003399 catalytic residue [active] 397945003400 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 397945003401 16S/18S rRNA binding site [nucleotide binding]; other site 397945003402 S13e-L30e interaction site [polypeptide binding]; other site 397945003403 25S rRNA binding site [nucleotide binding]; other site 397945003404 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 397945003405 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 397945003406 RNase E interface [polypeptide binding]; other site 397945003407 trimer interface [polypeptide binding]; other site 397945003408 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 397945003409 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 397945003410 RNase E interface [polypeptide binding]; other site 397945003411 trimer interface [polypeptide binding]; other site 397945003412 active site 397945003413 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 397945003414 putative nucleic acid binding region [nucleotide binding]; other site 397945003415 G-X-X-G motif; other site 397945003416 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 397945003417 RNA binding site [nucleotide binding]; other site 397945003418 domain interface; other site 397945003419 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 397945003420 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 397945003421 NAD(P) binding site [chemical binding]; other site 397945003422 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 397945003423 substrate binding site [chemical binding]; other site 397945003424 dimer interface [polypeptide binding]; other site 397945003425 catalytic triad [active] 397945003426 Preprotein translocase SecG subunit; Region: SecG; cl09123 397945003427 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 397945003428 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 397945003429 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 397945003430 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 397945003431 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 397945003432 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 397945003433 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 397945003434 putative dimer interface [polypeptide binding]; other site 397945003435 [2Fe-2S] cluster binding site [ion binding]; other site 397945003436 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 397945003437 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 397945003438 SLBB domain; Region: SLBB; pfam10531 397945003439 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 397945003440 NADH dehydrogenase subunit G; Validated; Region: PRK09129 397945003441 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 397945003442 catalytic loop [active] 397945003443 iron binding site [ion binding]; other site 397945003444 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 397945003445 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 397945003446 NADH dehydrogenase; Region: NADHdh; cl00469 397945003447 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 397945003448 4Fe-4S binding domain; Region: Fer4; cl02805 397945003449 4Fe-4S binding domain; Region: Fer4; cl02805 397945003450 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 397945003451 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 397945003452 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 397945003453 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 397945003454 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 397945003455 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 397945003456 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 397945003457 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 397945003458 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 397945003459 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 397945003460 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 397945003461 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 397945003462 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 397945003463 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945003464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003465 Walker A/P-loop; other site 397945003466 ATP binding site [chemical binding]; other site 397945003467 Q-loop/lid; other site 397945003468 ABC transporter signature motif; other site 397945003469 Walker B; other site 397945003470 D-loop; other site 397945003471 H-loop/switch region; other site 397945003472 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945003473 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 397945003474 Walker A/P-loop; other site 397945003475 ATP binding site [chemical binding]; other site 397945003476 Q-loop/lid; other site 397945003477 ABC transporter signature motif; other site 397945003478 Walker B; other site 397945003479 D-loop; other site 397945003480 H-loop/switch region; other site 397945003481 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945003482 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 397945003483 Walker A/P-loop; other site 397945003484 ATP binding site [chemical binding]; other site 397945003485 Q-loop/lid; other site 397945003486 ABC transporter signature motif; other site 397945003487 Walker B; other site 397945003488 D-loop; other site 397945003489 H-loop/switch region; other site 397945003490 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945003491 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 397945003492 putative ligand binding site [chemical binding]; other site 397945003493 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945003494 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 397945003495 putative ligand binding site [chemical binding]; other site 397945003496 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 397945003497 TM-ABC transporter signature motif; other site 397945003498 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 397945003499 TM-ABC transporter signature motif; other site 397945003500 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 397945003501 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 397945003502 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 397945003503 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945003504 catalytic residue [active] 397945003505 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 397945003506 active site 397945003507 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 397945003508 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 397945003509 putative dimer interface [polypeptide binding]; other site 397945003510 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945003511 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 397945003512 Walker A/P-loop; other site 397945003513 ATP binding site [chemical binding]; other site 397945003514 Q-loop/lid; other site 397945003515 ABC transporter signature motif; other site 397945003516 Walker B; other site 397945003517 D-loop; other site 397945003518 H-loop/switch region; other site 397945003519 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003521 NmrA-like family; Region: NmrA; pfam05368 397945003522 NAD(P) binding site [chemical binding]; other site 397945003523 active site 397945003524 Helix-turn-helix domains; Region: HTH; cl00088 397945003525 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 397945003526 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 397945003527 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 397945003528 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 397945003529 putative active site [active] 397945003530 catalytic site [active] 397945003531 putative metal binding site [ion binding]; other site 397945003532 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 397945003533 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 397945003534 ATP binding site [chemical binding]; other site 397945003535 Mg2+ binding site [ion binding]; other site 397945003536 G-X-G motif; other site 397945003537 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 397945003538 ATP binding site [chemical binding]; other site 397945003539 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 397945003540 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 397945003541 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 397945003542 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945003543 Cupin domain; Region: Cupin_2; cl09118 397945003544 AMIN domain; Region: AMIN; pfam11741 397945003545 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 397945003546 active site 397945003547 metal binding site [ion binding]; metal-binding site 397945003548 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 397945003549 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 397945003550 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 397945003551 Membrane transport protein; Region: Mem_trans; cl09117 397945003552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945003553 Helix-turn-helix domains; Region: HTH; cl00088 397945003554 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 397945003555 dimerization interface [polypeptide binding]; other site 397945003556 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 397945003557 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 397945003558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003559 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 397945003560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945003561 NMT1-like family; Region: NMT1_2; cl15260 397945003562 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 397945003563 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 397945003564 DNA binding site [nucleotide binding] 397945003565 Int/Topo IB signature motif; other site 397945003566 active site 397945003567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945003568 NMT1-like family; Region: NMT1_2; cl15260 397945003569 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 397945003570 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 397945003571 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 397945003572 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 397945003573 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 397945003574 dinuclear metal binding motif [ion binding]; other site 397945003575 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 397945003576 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 397945003577 trimer interface [polypeptide binding]; other site 397945003578 putative metal binding site [ion binding]; other site 397945003579 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 397945003580 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 397945003581 dimerization interface [polypeptide binding]; other site 397945003582 domain crossover interface; other site 397945003583 redox-dependent activation switch; other site 397945003584 Septum formation initiator; Region: DivIC; cl11433 397945003585 enolase; Provisional; Region: eno; PRK00077 397945003586 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 397945003587 dimer interface [polypeptide binding]; other site 397945003588 metal binding site [ion binding]; metal-binding site 397945003589 substrate binding pocket [chemical binding]; other site 397945003590 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 397945003591 NeuB family; Region: NeuB; cl00496 397945003592 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 397945003593 CTP synthetase; Validated; Region: pyrG; PRK05380 397945003594 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 397945003595 Catalytic site [active] 397945003596 active site 397945003597 UTP binding site [chemical binding]; other site 397945003598 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 397945003599 active site 397945003600 putative oxyanion hole; other site 397945003601 catalytic triad [active] 397945003602 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 397945003603 Flavoprotein; Region: Flavoprotein; cl08021 397945003604 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 397945003605 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 397945003606 trimer interface [polypeptide binding]; other site 397945003607 active site 397945003608 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 397945003609 Cupin superfamily protein; Region: Cupin_4; pfam08007 397945003610 JmjC domain, hydroxylase; Region: JmjC; cl15814 397945003611 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945003612 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 397945003613 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 397945003614 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 397945003615 dihydrodipicolinate synthase; Region: dapA; TIGR00674 397945003616 dimer interface [polypeptide binding]; other site 397945003617 active site 397945003618 catalytic residue [active] 397945003619 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 397945003620 S-adenosylmethionine binding site [chemical binding]; other site 397945003621 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945003622 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 397945003623 putative substrate translocation pore; other site 397945003624 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 397945003625 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 397945003626 ATP binding site [chemical binding]; other site 397945003627 Mg2+ binding site [ion binding]; other site 397945003628 G-X-G motif; other site 397945003629 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 397945003630 anchoring element; other site 397945003631 dimer interface [polypeptide binding]; other site 397945003632 ATP binding site [chemical binding]; other site 397945003633 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 397945003634 active site 397945003635 metal binding site [ion binding]; metal-binding site 397945003636 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 397945003637 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 397945003638 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945003639 catalytic residue [active] 397945003640 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 397945003641 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 397945003642 CAP-like domain; other site 397945003643 active site 397945003644 primary dimer interface [polypeptide binding]; other site 397945003645 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945003646 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003647 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003648 dimer interface [polypeptide binding]; other site 397945003649 putative CheW interface [polypeptide binding]; other site 397945003650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003652 dimer interface [polypeptide binding]; other site 397945003653 putative CheW interface [polypeptide binding]; other site 397945003654 pyridoxamine kinase; Validated; Region: PRK05756 397945003655 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 397945003656 pyridoxal binding site [chemical binding]; other site 397945003657 dimer interface [polypeptide binding]; other site 397945003658 ATP binding site [chemical binding]; other site 397945003659 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 397945003660 homotrimer interaction site [polypeptide binding]; other site 397945003661 putative active site [active] 397945003662 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003664 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 397945003665 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 397945003666 Competence protein; Region: Competence; cl00471 397945003667 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945003668 Uncharacterized conserved protein [Function unknown]; Region: COG2308 397945003669 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 397945003670 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 397945003671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003672 active site 397945003673 NAD+ binding site [chemical binding]; other site 397945003674 oligomerization interface [polypeptide binding]; other site 397945003675 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 397945003676 transcriptional regulator; Provisional; Region: PRK10632 397945003677 Helix-turn-helix domains; Region: HTH; cl00088 397945003678 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 397945003679 putative effector binding pocket; other site 397945003680 putative dimerization interface [polypeptide binding]; other site 397945003681 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 397945003682 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945003683 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945003684 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945003685 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 397945003686 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945003687 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945003688 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 397945003689 tetramerization interface [polypeptide binding]; other site 397945003690 NAD(P) binding site [chemical binding]; other site 397945003691 catalytic residues [active] 397945003692 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 397945003693 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 397945003694 N-terminal plug; other site 397945003695 ligand-binding site [chemical binding]; other site 397945003696 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 397945003697 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 397945003698 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945003699 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945003700 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945003701 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 397945003702 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 397945003703 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 397945003704 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 397945003705 heme binding site [chemical binding]; other site 397945003706 ferroxidase pore; other site 397945003707 ferroxidase diiron center [ion binding]; other site 397945003708 peroxiredoxin; Region: AhpC; TIGR03137 397945003709 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 397945003710 dimer interface [polypeptide binding]; other site 397945003711 decamer (pentamer of dimers) interface [polypeptide binding]; other site 397945003712 catalytic triad [active] 397945003713 peroxidatic and resolving cysteines [active] 397945003714 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 397945003715 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 397945003716 catalytic residue [active] 397945003717 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 397945003718 catalytic residues [active] 397945003719 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945003720 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 397945003721 Phosphoesterase family; Region: Phosphoesterase; cl15450 397945003722 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945003723 Domain of unknown function (DUF756); Region: DUF756; pfam05506 397945003724 Restriction endonuclease; Region: Mrr_cat; cl00516 397945003725 DNA topoisomerase I; Validated; Region: PRK05582 397945003726 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 397945003727 phosphoenolpyruvate synthase; Validated; Region: PRK06464 397945003728 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 397945003729 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 397945003730 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 397945003731 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 397945003732 Sodium:solute symporter family; Region: SSF; cl00456 397945003733 Sodium:solute symporter family; Region: SSF; cl00456 397945003734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003735 TIGR03118 family protein; Region: PEPCTERM_chp_1 397945003736 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 397945003737 Helix-turn-helix domains; Region: HTH; cl00088 397945003738 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945003739 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945003740 aromatic amino acid exporter; Provisional; Region: PRK11689 397945003741 VirK protein; Region: VirK; pfam06903 397945003742 cell density-dependent motility repressor; Provisional; Region: PRK10082 397945003743 Helix-turn-helix domains; Region: HTH; cl00088 397945003744 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 397945003745 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 397945003746 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 397945003747 inhibitor site; inhibition site 397945003748 active site 397945003749 dimer interface [polypeptide binding]; other site 397945003750 catalytic residue [active] 397945003751 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945003752 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945003753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945003754 NMT1-like family; Region: NMT1_2; cl15260 397945003755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003756 classical (c) SDRs; Region: SDR_c; cd05233 397945003757 NAD(P) binding site [chemical binding]; other site 397945003758 active site 397945003759 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 397945003760 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 397945003761 putative active site pocket [active] 397945003762 metal binding site [ion binding]; metal-binding site 397945003763 recombination protein F; Reviewed; Region: recF; PRK00064 397945003764 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 397945003765 Transposase domain (DUF772); Region: DUF772; cl15789 397945003766 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945003767 Transposase domain (DUF772); Region: DUF772; cl15789 397945003768 Transposase domain (DUF772); Region: DUF772; cl15789 397945003769 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 397945003770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003771 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 397945003772 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945003773 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 397945003774 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945003775 dimerization interface [polypeptide binding]; other site 397945003776 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945003777 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945003778 dimer interface [polypeptide binding]; other site 397945003779 putative CheW interface [polypeptide binding]; other site 397945003780 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 397945003781 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 397945003782 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 397945003783 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 397945003784 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945003785 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 397945003786 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945003787 DNA binding residues [nucleotide binding] 397945003788 DNA primase, catalytic core; Region: dnaG; TIGR01391 397945003789 CHC2 zinc finger; Region: zf-CHC2; cl15369 397945003790 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 397945003791 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 397945003792 active site 397945003793 metal binding site [ion binding]; metal-binding site 397945003794 interdomain interaction site; other site 397945003795 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 397945003796 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 397945003797 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945003798 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945003799 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 397945003800 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945003801 PhoD-like phosphatase; Region: PhoD; pfam09423 397945003802 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 397945003803 putative active site [active] 397945003804 putative metal binding site [ion binding]; other site 397945003805 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 397945003806 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 397945003807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945003808 metal binding site [ion binding]; metal-binding site 397945003809 active site 397945003810 I-site; other site 397945003811 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 397945003812 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 397945003813 NAD(P) binding site [chemical binding]; other site 397945003814 Survival protein SurE; Region: SurE; cl00448 397945003815 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 397945003816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945003817 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; cd00118 397945003818 putative peptidoglycan binding site; other site 397945003819 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 397945003820 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945003821 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 397945003822 RNA binding surface [nucleotide binding]; other site 397945003823 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 397945003824 active site 397945003825 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 397945003826 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945003827 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 397945003828 RNA binding surface [nucleotide binding]; other site 397945003829 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 397945003830 probable active site [active] 397945003831 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 397945003832 active site 397945003833 multimer interface [polypeptide binding]; other site 397945003834 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 397945003835 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 397945003836 FeS/SAM binding site; other site 397945003837 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 397945003838 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 397945003839 binding surface 397945003840 TPR motif; other site 397945003841 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 397945003842 binding surface 397945003843 TPR motif; other site 397945003844 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945003845 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 397945003846 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 397945003847 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 397945003848 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 397945003849 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 397945003850 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 397945003851 dimer interface [polypeptide binding]; other site 397945003852 motif 1; other site 397945003853 active site 397945003854 motif 2; other site 397945003855 motif 3; other site 397945003856 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 397945003857 anticodon binding site; other site 397945003858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 397945003859 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 397945003860 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 397945003861 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 397945003862 Trp docking motif [polypeptide binding]; other site 397945003863 active site 397945003864 GTP-binding protein Der; Reviewed; Region: PRK00093 397945003865 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 397945003866 G1 box; other site 397945003867 GTP/Mg2+ binding site [chemical binding]; other site 397945003868 Switch I region; other site 397945003869 G2 box; other site 397945003870 Switch II region; other site 397945003871 G3 box; other site 397945003872 G4 box; other site 397945003873 G5 box; other site 397945003874 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 397945003875 G1 box; other site 397945003876 GTP/Mg2+ binding site [chemical binding]; other site 397945003877 Switch I region; other site 397945003878 G2 box; other site 397945003879 G3 box; other site 397945003880 Switch II region; other site 397945003881 G4 box; other site 397945003882 G5 box; other site 397945003883 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 397945003884 Sm1 motif; other site 397945003885 intra - hexamer interaction site; other site 397945003886 inter - hexamer interaction site [polypeptide binding]; other site 397945003887 nucleotide binding pocket [chemical binding]; other site 397945003888 Sm2 motif; other site 397945003889 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 397945003890 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 397945003891 HflX GTPase family; Region: HflX; cd01878 397945003892 G1 box; other site 397945003893 GTP/Mg2+ binding site [chemical binding]; other site 397945003894 Switch I region; other site 397945003895 G2 box; other site 397945003896 G3 box; other site 397945003897 Switch II region; other site 397945003898 G4 box; other site 397945003899 G5 box; other site 397945003900 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 397945003901 HflK protein; Region: hflK; TIGR01933 397945003902 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 397945003903 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 397945003904 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 397945003905 dimer interface [polypeptide binding]; other site 397945003906 motif 1; other site 397945003907 active site 397945003908 motif 2; other site 397945003909 motif 3; other site 397945003910 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 397945003911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945003913 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945003914 active site 397945003915 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945003916 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 397945003917 active site 397945003918 uracil binding [chemical binding]; other site 397945003919 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 397945003920 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 397945003921 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 397945003922 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 397945003923 NodB motif; other site 397945003924 active site 397945003925 catalytic site [active] 397945003926 metal binding site [ion binding]; metal-binding site 397945003927 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 397945003928 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 397945003929 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 397945003930 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 397945003931 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 397945003932 putative MPT binding site; other site 397945003933 glutamine synthetase; Provisional; Region: glnA; PRK09469 397945003934 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 397945003935 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 397945003936 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945003937 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945003938 dimer interface [polypeptide binding]; other site 397945003939 phosphorylation site [posttranslational modification] 397945003940 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 397945003941 ATP binding site [chemical binding]; other site 397945003942 Mg2+ binding site [ion binding]; other site 397945003943 G-X-G motif; other site 397945003944 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 397945003945 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 397945003946 active site 397945003947 phosphorylation site [posttranslational modification] 397945003948 intermolecular recognition site; other site 397945003949 dimerization interface [polypeptide binding]; other site 397945003950 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945003951 Walker A motif; other site 397945003952 ATP binding site [chemical binding]; other site 397945003953 Walker B motif; other site 397945003954 arginine finger; other site 397945003955 Helix-turn-helix domains; Region: HTH; cl00088 397945003956 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 397945003957 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 397945003958 putative phosphate binding site [ion binding]; other site 397945003959 putative catalytic site [active] 397945003960 active site 397945003961 metal binding site A [ion binding]; metal-binding site 397945003962 DNA binding site [nucleotide binding] 397945003963 putative AP binding site [nucleotide binding]; other site 397945003964 putative metal binding site B [ion binding]; other site 397945003965 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 397945003966 folate binding site [chemical binding]; other site 397945003967 NADP+ binding site [chemical binding]; other site 397945003968 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 397945003969 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 397945003970 dimerization interface [polypeptide binding]; other site 397945003971 active site 397945003972 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945003973 FAD binding domain; Region: FAD_binding_4; pfam01565 397945003974 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 397945003975 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 397945003976 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 397945003977 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 397945003978 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 397945003979 catalytic residues [active] 397945003980 substrate binding pocket [chemical binding]; other site 397945003981 substrate-Mg2+ binding site; other site 397945003982 aspartate-rich region 1; other site 397945003983 aspartate-rich region 2; other site 397945003984 Found in ATP-dependent protease La (LON); Region: LON; smart00464 397945003985 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 397945003986 Found in ATP-dependent protease La (LON); Region: LON; smart00464 397945003987 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945003988 Walker A motif; other site 397945003989 ATP binding site [chemical binding]; other site 397945003990 Walker B motif; other site 397945003991 arginine finger; other site 397945003992 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 397945003993 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 397945003994 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 397945003995 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945003996 Walker A motif; other site 397945003997 ATP binding site [chemical binding]; other site 397945003998 Walker B motif; other site 397945003999 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 397945004000 Clp protease; Region: CLP_protease; pfam00574 397945004001 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 397945004002 oligomer interface [polypeptide binding]; other site 397945004003 active site residues [active] 397945004004 trigger factor; Provisional; Region: tig; PRK01490 397945004005 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 397945004006 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 397945004007 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 397945004008 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945004009 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945004010 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945004011 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 397945004012 active site lid residues [active] 397945004013 substrate binding pocket [chemical binding]; other site 397945004014 catalytic residues [active] 397945004015 substrate-Mg2+ binding site; other site 397945004016 aspartate-rich region 1; other site 397945004017 aspartate-rich region 2; other site 397945004018 Protein of unknown function (DUF796); Region: DUF796; cl01226 397945004019 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 397945004020 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945004021 active site 397945004022 ATP binding site [chemical binding]; other site 397945004023 substrate binding site [chemical binding]; other site 397945004024 activation loop (A-loop); other site 397945004025 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 397945004026 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945004027 phosphopeptide binding site; other site 397945004028 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 397945004029 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 397945004030 active site 397945004031 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 397945004032 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 397945004033 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 397945004034 hypothetical protein; Provisional; Region: PRK07033 397945004035 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 397945004036 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945004037 ligand binding site [chemical binding]; other site 397945004038 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 397945004039 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 397945004040 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 397945004041 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 397945004042 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 397945004043 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 397945004044 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 397945004045 Protein of unknown function (DUF770); Region: DUF770; cl01402 397945004046 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 397945004047 Protein of unknown function (DUF877); Region: DUF877; pfam05943 397945004048 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 397945004049 ImpE protein; Region: ImpE; pfam07024 397945004050 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 397945004051 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 397945004052 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 397945004053 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 397945004054 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 397945004055 Clp amino terminal domain; Region: Clp_N; pfam02861 397945004056 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945004057 Walker A motif; other site 397945004058 ATP binding site [chemical binding]; other site 397945004059 Walker B motif; other site 397945004060 arginine finger; other site 397945004061 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945004062 Walker A motif; other site 397945004063 ATP binding site [chemical binding]; other site 397945004064 Walker B motif; other site 397945004065 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 397945004066 Protein of unknown function DUF45; Region: DUF45; cl00636 397945004067 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 397945004068 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 397945004069 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945004070 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 397945004071 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 397945004072 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945004073 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 397945004074 Fumarase C-terminus; Region: Fumerase_C; cl00795 397945004075 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 397945004076 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945004077 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945004078 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945004079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945004080 metal binding site [ion binding]; metal-binding site 397945004081 active site 397945004082 I-site; other site 397945004083 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 397945004084 fumarate hydratase; Reviewed; Region: fumC; PRK00485 397945004085 Class II fumarases; Region: Fumarase_classII; cd01362 397945004086 active site 397945004087 tetramer interface [polypeptide binding]; other site 397945004088 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 397945004089 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 397945004090 DNA binding site [nucleotide binding] 397945004091 active site 397945004092 Int/Topo IB signature motif; other site 397945004093 catalytic residues [active] 397945004094 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 397945004095 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 397945004096 active site 397945004097 phosphorylation site [posttranslational modification] 397945004098 intermolecular recognition site; other site 397945004099 dimerization interface [polypeptide binding]; other site 397945004100 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945004101 DNA binding site [nucleotide binding] 397945004102 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945004103 dimerization interface [polypeptide binding]; other site 397945004104 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945004105 dimer interface [polypeptide binding]; other site 397945004106 phosphorylation site [posttranslational modification] 397945004107 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 397945004108 ATP binding site [chemical binding]; other site 397945004109 Mg2+ binding site [ion binding]; other site 397945004110 G-X-G motif; other site 397945004111 NMT1-like family; Region: NMT1_2; cl15260 397945004112 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 397945004113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945004114 dimer interface [polypeptide binding]; other site 397945004115 conserved gate region; other site 397945004116 putative PBP binding loops; other site 397945004117 ABC-ATPase subunit interface; other site 397945004118 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 397945004119 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 397945004120 Walker A/P-loop; other site 397945004121 ATP binding site [chemical binding]; other site 397945004122 Q-loop/lid; other site 397945004123 ABC transporter signature motif; other site 397945004124 Walker B; other site 397945004125 D-loop; other site 397945004126 H-loop/switch region; other site 397945004127 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 397945004128 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 397945004129 acetyl-CoA synthetase; Provisional; Region: PRK00174 397945004130 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 397945004131 AMP-binding enzyme; Region: AMP-binding; cl15778 397945004132 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945004133 Cytochrome c; Region: Cytochrom_C; cl11414 397945004134 Dehydratase family; Region: ILVD_EDD; cl00340 397945004135 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 397945004136 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 397945004137 heme binding site [chemical binding]; other site 397945004138 ferroxidase pore; other site 397945004139 ferroxidase diiron center [ion binding]; other site 397945004140 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 397945004141 Fic/DOC family; Region: Fic; cl00960 397945004142 Fic/DOC family; Region: Fic; cl00960 397945004143 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 397945004144 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945004145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945004146 DNA-binding site [nucleotide binding]; DNA binding site 397945004147 FCD domain; Region: FCD; cl11656 397945004148 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 397945004149 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945004150 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945004151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945004152 NMT1-like family; Region: NMT1_2; cl15260 397945004153 enoyl-CoA hydratase; Provisional; Region: PRK06144 397945004154 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 397945004155 substrate binding site [chemical binding]; other site 397945004156 oxyanion hole (OAH) forming residues; other site 397945004157 trimer interface [polypeptide binding]; other site 397945004158 malonyl-CoA synthase; Validated; Region: PRK07514 397945004159 AMP-binding enzyme; Region: AMP-binding; cl15778 397945004160 AMP-binding enzyme; Region: AMP-binding; cl15778 397945004161 Fic family protein [Function unknown]; Region: COG3177 397945004162 Fic/DOC family; Region: Fic; cl00960 397945004163 Helix-turn-helix domains; Region: HTH; cl00088 397945004164 Integrase core domain; Region: rve; cl01316 397945004165 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945004166 Integrase core domain; Region: rve_3; cl15866 397945004167 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 397945004168 Ligand Binding Site [chemical binding]; other site 397945004169 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 397945004170 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 397945004171 metal-binding site [ion binding] 397945004172 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945004173 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 397945004174 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 reduction...; Region: cbb3_Oxidase_I; cd01661 397945004175 Low-spin heme binding site [chemical binding]; other site 397945004176 Putative water exit pathway; other site 397945004177 Binuclear center (active site) [active] 397945004178 Putative proton exit pathway; other site 397945004179 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 397945004180 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 397945004181 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 O2...; Region: cbb3_Oxidase_CcoQ; cd01324 397945004182 VirB8 protein; Region: VirB8; cl01500 397945004183 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 397945004184 Cytochrome c; Region: Cytochrom_C; cl11414 397945004185 Cytochrome c; Region: Cytochrom_C; cl11414 397945004186 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 397945004187 4Fe-4S binding domain; Region: Fer4_5; pfam12801 397945004188 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 397945004189 FixH; Region: FixH; cl01254 397945004190 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 397945004191 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 397945004192 ligand binding site [chemical binding]; other site 397945004193 flexible hinge region; other site 397945004194 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 397945004195 putative switch regulator; other site 397945004196 non-specific DNA interactions [nucleotide binding]; other site 397945004197 DNA binding site [nucleotide binding] 397945004198 sequence specific DNA binding site [nucleotide binding]; other site 397945004199 putative cAMP binding site [chemical binding]; other site 397945004200 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 397945004201 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 397945004202 FeS/SAM binding site; other site 397945004203 HemN C-terminal domain; Region: HemN_C; pfam06969 397945004204 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 397945004205 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945004206 Zn2+ binding site [ion binding]; other site 397945004207 Mg2+ binding site [ion binding]; other site 397945004208 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 397945004209 PAS domain; Region: PAS_9; pfam13426 397945004210 PAS fold; Region: PAS_7; pfam12860 397945004211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945004212 metal binding site [ion binding]; metal-binding site 397945004213 active site 397945004214 I-site; other site 397945004215 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 397945004216 Cell division protein ZapA; Region: ZapA; cl01146 397945004217 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 397945004218 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 397945004219 N-terminal plug; other site 397945004220 ligand-binding site [chemical binding]; other site 397945004221 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 397945004222 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945004223 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 397945004224 catalytic triad [active] 397945004225 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 397945004226 homotrimer interface [polypeptide binding]; other site 397945004227 Walker A motif; other site 397945004228 GTP binding site [chemical binding]; other site 397945004229 Walker B motif; other site 397945004230 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 397945004231 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 397945004232 putative binding site residues; other site 397945004233 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 397945004234 dimer interface [polypeptide binding]; other site 397945004235 putative PBP binding regions; other site 397945004236 ABC-ATPase subunit interface; other site 397945004237 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 397945004238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945004239 Walker A/P-loop; other site 397945004240 ATP binding site [chemical binding]; other site 397945004241 Q-loop/lid; other site 397945004242 ABC transporter signature motif; other site 397945004243 Walker B; other site 397945004244 D-loop; other site 397945004245 H-loop/switch region; other site 397945004246 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 397945004247 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 397945004248 homodimer interface [polypeptide binding]; other site 397945004249 Walker A motif; other site 397945004250 ATP binding site [chemical binding]; other site 397945004251 hydroxycobalamin binding site [chemical binding]; other site 397945004252 Walker B motif; other site 397945004253 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 397945004254 putative FMN binding site [chemical binding]; other site 397945004255 CobD/Cbib protein; Region: CobD_Cbib; cl00561 397945004256 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 397945004257 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 397945004258 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945004259 catalytic residue [active] 397945004260 PLD-like domain; Region: PLDc_2; pfam13091 397945004261 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 397945004262 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 397945004263 classical (c) SDRs; Region: SDR_c; cd05233 397945004264 NAD(P) binding site [chemical binding]; other site 397945004265 active site 397945004266 cobyric acid synthase; Provisional; Region: PRK00784 397945004267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945004268 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 397945004269 catalytic triad [active] 397945004270 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 397945004271 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 397945004272 putative dimer interface [polypeptide binding]; other site 397945004273 active site pocket [active] 397945004274 putative cataytic base [active] 397945004275 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945004276 Transposase domain (DUF772); Region: DUF772; cl15789 397945004277 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 397945004278 Transposase domain (DUF772); Region: DUF772; cl15789 397945004279 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 397945004280 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 397945004281 putative substrate translocation pore; other site 397945004282 tellurite resistance protein terB; Region: terB; cd07176 397945004283 putative metal binding site [ion binding]; other site 397945004284 Domain of unknown function (DUF697); Region: DUF697; cl12064 397945004285 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945004286 endonuclease III; Provisional; Region: PRK10702 397945004287 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945004288 minor groove reading motif; other site 397945004289 helix-hairpin-helix signature motif; other site 397945004290 substrate binding pocket [chemical binding]; other site 397945004291 active site 397945004292 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 397945004293 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 397945004294 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 397945004295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945004296 homodimer interface [polypeptide binding]; other site 397945004297 catalytic residue [active] 397945004298 SlyX; Region: SlyX; cl01090 397945004299 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 397945004300 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 397945004301 active site 397945004302 catalytic tetrad [active] 397945004303 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 397945004304 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945004305 ATP binding site [chemical binding]; other site 397945004306 Mg++ binding site [ion binding]; other site 397945004307 motif III; other site 397945004308 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 397945004309 nucleotide binding region [chemical binding]; other site 397945004310 ATP-binding site [chemical binding]; other site 397945004311 translation initiation factor Sui1; Validated; Region: PRK06824 397945004312 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 397945004313 Predicted RNA interaction site [nucleotide binding]; other site 397945004314 putative binding site; other site 397945004315 Mutations affecting start-site selection; other site 397945004316 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 397945004317 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 397945004318 heme-binding site [chemical binding]; other site 397945004319 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 397945004320 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 397945004321 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 397945004322 Helix-turn-helix domains; Region: HTH; cl00088 397945004323 Rrf2 family protein; Region: rrf2_super; TIGR00738 397945004324 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 397945004325 Helix-turn-helix domains; Region: HTH; cl00088 397945004326 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 397945004327 dimerization interface [polypeptide binding]; other site 397945004328 LysE type translocator; Region: LysE; cl00565 397945004329 NMT1-like family; Region: NMT1_2; cl15260 397945004330 phosphoserine phosphatase SerB; Region: serB; TIGR00338 397945004331 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945004332 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 397945004333 motif II; other site 397945004334 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945004335 DNA binding residues [nucleotide binding] 397945004336 dimerization interface [polypeptide binding]; other site 397945004337 Tannase and feruloyl esterase; Region: Tannase; pfam07519 397945004338 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 397945004339 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 397945004340 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 397945004341 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 397945004342 ATP binding site [chemical binding]; other site 397945004343 putative Mg++ binding site [ion binding]; other site 397945004344 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 397945004345 nucleotide binding region [chemical binding]; other site 397945004346 ATP-binding site [chemical binding]; other site 397945004347 TRCF domain; Region: TRCF; cl04088 397945004348 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 397945004349 substrate binding site; other site 397945004350 dimer interface; other site 397945004351 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 397945004352 homotrimer interaction site [polypeptide binding]; other site 397945004353 zinc binding site [ion binding]; other site 397945004354 CDP-binding sites; other site 397945004355 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945004356 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945004357 dimer interface [polypeptide binding]; other site 397945004358 phosphorylation site [posttranslational modification] 397945004359 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 397945004360 ATP binding site [chemical binding]; other site 397945004361 Mg2+ binding site [ion binding]; other site 397945004362 G-X-G motif; other site 397945004363 osmolarity response regulator; Provisional; Region: ompR; PRK09468 397945004364 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 397945004365 active site 397945004366 phosphorylation site [posttranslational modification] 397945004367 intermolecular recognition site; other site 397945004368 dimerization interface [polypeptide binding]; other site 397945004369 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945004370 DNA binding site [nucleotide binding] 397945004371 Protein of unknown function (DUF541); Region: SIMPL; cl01077 397945004372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004373 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 397945004374 NAD(P) binding site [chemical binding]; other site 397945004375 active site 397945004376 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945004377 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 397945004378 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 397945004379 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 397945004380 synthetase active site [active] 397945004381 NTP binding site [chemical binding]; other site 397945004382 metal binding site [ion binding]; metal-binding site 397945004383 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 397945004384 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 397945004385 OsmC-like protein; Region: OsmC; cl00767 397945004386 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 397945004387 intracellular protease, PfpI family; Region: PfpI; TIGR01382 397945004388 proposed catalytic triad [active] 397945004389 conserved cys residue [active] 397945004390 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 397945004391 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 397945004392 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 397945004393 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 397945004394 TIR domain; Region: TIR_2; cl15770 397945004395 ParB-like nuclease domain; Region: ParBc; cl02129 397945004396 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 397945004397 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 397945004398 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 397945004399 non-specific DNA binding site [nucleotide binding]; other site 397945004400 salt bridge; other site 397945004401 sequence-specific DNA binding site [nucleotide binding]; other site 397945004402 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945004403 Catalytic site [active] 397945004404 hypothetical protein; Validated; Region: PRK07078 397945004405 hypothetical protein; Validated; Region: PRK07078 397945004406 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 397945004407 active site 397945004408 metal binding site [ion binding]; metal-binding site 397945004409 interdomain interaction site; other site 397945004410 Virulence-associated protein E; Region: VirE; pfam05272 397945004411 Phage terminase, small subunit; Region: Terminase_4; cl01525 397945004412 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 397945004413 Phage Terminase; Region: Terminase_1; pfam03354 397945004414 Phage-related protein [Function unknown]; Region: COG4695; cl01923 397945004415 Phage portal protein; Region: Phage_portal; pfam04860 397945004416 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 397945004417 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 397945004418 tandem repeat interface [polypeptide binding]; other site 397945004419 oligomer interface [polypeptide binding]; other site 397945004420 active site residues [active] 397945004421 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 397945004422 Phage capsid family; Region: Phage_capsid; pfam05065 397945004423 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 397945004424 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 397945004425 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 397945004426 Phage tail protein; Region: Phage_tail_3; pfam08813 397945004427 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 397945004428 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 397945004429 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 397945004430 MAEBL; Provisional; Region: PTZ00121 397945004431 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 397945004432 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 397945004433 virion protein; Provisional; Region: V; PHA02564 397945004434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004435 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; cl00197 397945004436 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 397945004437 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 397945004438 catalytic residues [active] 397945004439 catalytic nucleophile [active] 397945004440 Recombinase; Region: Recombinase; pfam07508 397945004441 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 397945004442 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 397945004443 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 397945004444 FeS/SAM binding site; other site 397945004445 citrate-proton symporter; Provisional; Region: PRK15075 397945004446 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 397945004447 putative substrate translocation pore; other site 397945004448 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 397945004449 active site 397945004450 ADP-ribosylating toxin turn-turn motif; other site 397945004451 elongation factor P; Validated; Region: PRK00529 397945004452 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 397945004453 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 397945004454 RNA binding site [nucleotide binding]; other site 397945004455 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 397945004456 RNA binding site [nucleotide binding]; other site 397945004457 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 397945004458 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945004459 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 397945004460 putative dimerization interface [polypeptide binding]; other site 397945004461 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945004462 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945004463 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 397945004464 active site 397945004465 catalytic residues [active] 397945004466 metal binding site [ion binding]; metal-binding site 397945004467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945004468 NMT1-like family; Region: NMT1_2; cl15260 397945004469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945004470 NMT1-like family; Region: NMT1_2; cl15260 397945004471 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 397945004472 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 397945004473 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 397945004474 putative active site [active] 397945004475 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 397945004476 catalytic nucleophile [active] 397945004477 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 397945004478 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 397945004479 Walker A/P-loop; other site 397945004480 ATP binding site [chemical binding]; other site 397945004481 Q-loop/lid; other site 397945004482 ABC transporter signature motif; other site 397945004483 Walker B; other site 397945004484 D-loop; other site 397945004485 H-loop/switch region; other site 397945004486 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945004487 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 397945004488 Walker A/P-loop; other site 397945004489 ATP binding site [chemical binding]; other site 397945004490 Q-loop/lid; other site 397945004491 ABC transporter signature motif; other site 397945004492 Walker B; other site 397945004493 D-loop; other site 397945004494 H-loop/switch region; other site 397945004495 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945004496 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 397945004497 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 397945004498 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 397945004499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945004500 dimer interface [polypeptide binding]; other site 397945004501 conserved gate region; other site 397945004502 putative PBP binding loops; other site 397945004503 ABC-ATPase subunit interface; other site 397945004504 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 397945004505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945004506 dimer interface [polypeptide binding]; other site 397945004507 conserved gate region; other site 397945004508 putative PBP binding loops; other site 397945004509 ABC-ATPase subunit interface; other site 397945004510 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 397945004511 homodimer interface [polypeptide binding]; other site 397945004512 homotetramer interface [polypeptide binding]; other site 397945004513 active site pocket [active] 397945004514 cleavage site 397945004515 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 397945004516 SxDxEG motif; other site 397945004517 active site 397945004518 metal binding site [ion binding]; metal-binding site 397945004519 homopentamer interface [polypeptide binding]; other site 397945004520 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945004521 aspartate racemase; Region: asp_race; TIGR00035 397945004522 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 397945004523 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 397945004524 GIY-YIG motif/motif A; other site 397945004525 active site 397945004526 catalytic site [active] 397945004527 putative DNA binding site [nucleotide binding]; other site 397945004528 metal binding site [ion binding]; metal-binding site 397945004529 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 397945004530 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 397945004531 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 397945004532 IHF dimer interface [polypeptide binding]; other site 397945004533 IHF - DNA interface [nucleotide binding]; other site 397945004534 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 397945004535 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 397945004536 DNA binding site [nucleotide binding] 397945004537 Int/Topo IB signature motif; other site 397945004538 active site 397945004539 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 397945004540 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 397945004541 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 397945004542 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; cl15754 397945004543 cofactor binding site; other site 397945004544 DNA binding site [nucleotide binding] 397945004545 substrate interaction site [chemical binding]; other site 397945004546 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; cl15754 397945004547 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 397945004548 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 397945004549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004551 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 397945004552 non-specific DNA binding site [nucleotide binding]; other site 397945004553 salt bridge; other site 397945004554 sequence-specific DNA binding site [nucleotide binding]; other site 397945004555 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945004556 Catalytic site [active] 397945004557 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945004558 L-serine deaminase; Provisional; Region: PRK15023 397945004559 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 397945004560 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 397945004561 Helix-turn-helix domains; Region: HTH; cl00088 397945004562 N-terminal catalytic GIY-YIG domain of bacteriophage T4 segABCDEFG gene encoding proteins; Region: GIY-YIG_SegABCDEFG; cd10444 397945004563 GIY-YIG motif/motif A; other site 397945004564 putative active site [active] 397945004565 putative metal binding site [ion binding]; other site 397945004566 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 397945004567 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 397945004568 Terminase small subunit; Region: Terminase_2; cl01513 397945004569 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 397945004570 Competence protein CoiA-like family; Region: CoiA; cl11541 397945004571 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 397945004572 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 397945004573 Arc-like DNA binding domain; Region: Arc; pfam03869 397945004574 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 397945004575 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 397945004576 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 397945004577 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 397945004578 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; cl10351 397945004579 periplasmic folding chaperone; Provisional; Region: PRK10788 397945004580 SurA N-terminal domain; Region: SurA_N_3; cl07813 397945004581 PPIC-type PPIASE domain; Region: Rotamase; cl08278 397945004582 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 397945004583 DNA binding site [nucleotide binding] 397945004584 Int/Topo IB signature motif; other site 397945004585 active site 397945004586 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 397945004587 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; cl15754 397945004588 cofactor binding site; other site 397945004589 DNA binding site [nucleotide binding] 397945004590 substrate interaction site [chemical binding]; other site 397945004591 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; cl15754 397945004592 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 397945004593 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 397945004594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004596 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 397945004597 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 397945004598 sequence-specific DNA binding site [nucleotide binding]; other site 397945004599 salt bridge; other site 397945004600 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945004601 Catalytic site [active] 397945004602 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945004603 Protein of unknown function (DUF968); Region: DUF968; pfam06147 397945004604 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 397945004605 active site 397945004606 Phage Terminase; Region: Terminase_1; pfam03354 397945004607 Phage-related protein [Function unknown]; Region: COG4695; cl01923 397945004608 Phage portal protein; Region: Phage_portal; pfam04860 397945004609 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 397945004610 oligomerization interface [polypeptide binding]; other site 397945004611 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 397945004612 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 397945004613 HNH endonuclease; Region: HNH_3; pfam13392 397945004614 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 397945004615 Phage tail protein; Region: Phage_tail_3; pfam08813 397945004616 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 397945004617 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 397945004618 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 397945004619 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 397945004620 cell division protein MukB; Provisional; Region: mukB; PRK04863 397945004621 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 397945004622 virion protein; Provisional; Region: V; PHA02564 397945004623 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945004624 putative cation:proton antiport protein; Provisional; Region: PRK10669 397945004625 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 397945004626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004627 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 397945004628 active site 397945004629 Zn binding site [ion binding]; other site 397945004630 helicase 45; Provisional; Region: PTZ00424 397945004631 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 397945004632 ATP binding site [chemical binding]; other site 397945004633 Mg++ binding site [ion binding]; other site 397945004634 motif III; other site 397945004635 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 397945004636 nucleotide binding region [chemical binding]; other site 397945004637 ATP-binding site [chemical binding]; other site 397945004638 Transposase domain (DUF772); Region: DUF772; cl15789 397945004639 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945004640 Transposase domain (DUF772); Region: DUF772; cl15789 397945004641 Transposase domain (DUF772); Region: DUF772; cl15789 397945004642 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 397945004643 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 397945004644 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945004645 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945004646 ABC transporter; Region: ABC_tran_2; pfam12848 397945004647 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945004648 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 397945004649 NMT1-like family; Region: NMT1_2; cl15260 397945004650 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 397945004651 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...; Region: nylC_like; cd02252 397945004652 putative active site pocket [active] 397945004653 cleavage site 397945004654 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 397945004655 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945004656 Helix-turn-helix domains; Region: HTH; cl00088 397945004657 transcriptional activator TtdR; Provisional; Region: PRK09801 397945004658 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 397945004659 putative effector binding pocket; other site 397945004660 dimerization interface [polypeptide binding]; other site 397945004661 Protein of unknown function, DUF; Region: DUF411; cl01142 397945004662 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 397945004663 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 397945004664 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 397945004665 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 397945004666 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 397945004667 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 397945004668 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945004669 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 397945004670 DNA binding residues [nucleotide binding] 397945004671 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 397945004672 dimer interface [polypeptide binding]; other site 397945004673 putative metal binding site [ion binding]; other site 397945004674 Permease; Region: Permease; cl00510 397945004675 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 397945004676 mce related protein; Region: MCE; pfam02470 397945004677 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 397945004678 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 397945004679 putative substrate binding site [chemical binding]; other site 397945004680 putative ATP binding site [chemical binding]; other site 397945004681 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945004682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945004683 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 397945004684 rRNA interaction site [nucleotide binding]; other site 397945004685 S8 interaction site; other site 397945004686 putative laminin-1 binding site; other site 397945004687 elongation factor Ts; Provisional; Region: tsf; PRK09377 397945004688 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 397945004689 Elongation factor TS; Region: EF_TS; pfam00889 397945004690 Elongation factor TS; Region: EF_TS; pfam00889 397945004691 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 397945004692 putative nucleotide binding site [chemical binding]; other site 397945004693 uridine monophosphate binding site [chemical binding]; other site 397945004694 homohexameric interface [polypeptide binding]; other site 397945004695 ribosome recycling factor; Reviewed; Region: frr; PRK00083 397945004696 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 397945004697 hinge region; other site 397945004698 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 397945004699 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 397945004700 catalytic residue [active] 397945004701 putative FPP diphosphate binding site; other site 397945004702 putative FPP binding hydrophobic cleft; other site 397945004703 dimer interface [polypeptide binding]; other site 397945004704 putative IPP diphosphate binding site; other site 397945004705 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 397945004706 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 397945004707 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 397945004708 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 397945004709 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 397945004710 zinc metallopeptidase RseP; Provisional; Region: PRK10779 397945004711 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 397945004712 active site 397945004713 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 397945004714 protein binding site [polypeptide binding]; other site 397945004715 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 397945004716 putative substrate binding region [chemical binding]; other site 397945004717 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 397945004718 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 397945004719 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 397945004720 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 397945004721 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 397945004722 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 397945004723 Surface antigen; Region: Bac_surface_Ag; cl03097 397945004724 periplasmic chaperone; Provisional; Region: PRK10780 397945004725 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 397945004726 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 397945004727 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 397945004728 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 397945004729 trimer interface [polypeptide binding]; other site 397945004730 active site 397945004731 UDP-GlcNAc binding site [chemical binding]; other site 397945004732 lipid binding site [chemical binding]; lipid-binding site 397945004733 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 397945004734 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 397945004735 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 397945004736 active site 397945004737 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 397945004738 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 397945004739 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 397945004740 RNA/DNA hybrid binding site [nucleotide binding]; other site 397945004741 active site 397945004742 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 397945004743 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 397945004744 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945004745 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945004746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945004747 NMT1-like family; Region: NMT1_2; cl15260 397945004748 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945004749 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945004750 active site 397945004751 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 397945004752 Helix-turn-helix domains; Region: HTH; cl00088 397945004753 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 397945004754 putative dimerization interface [polypeptide binding]; other site 397945004755 putative substrate binding pocket [chemical binding]; other site 397945004756 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 397945004757 AMP binding site [chemical binding]; other site 397945004758 metal binding site [ion binding]; metal-binding site 397945004759 active site 397945004760 aminopeptidase N; Provisional; Region: pepN; PRK14015 397945004761 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 397945004762 active site 397945004763 Zn binding site [ion binding]; other site 397945004764 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 397945004765 Predicted ATPase [General function prediction only]; Region: COG4637 397945004766 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945004767 Walker A/P-loop; other site 397945004768 ATP binding site [chemical binding]; other site 397945004769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945004770 ABC transporter signature motif; other site 397945004771 Walker B; other site 397945004772 D-loop; other site 397945004773 H-loop/switch region; other site 397945004774 RF-1 domain; Region: RF-1; cl02875 397945004775 peptide chain release factor 2; Provisional; Region: PRK08787 397945004776 RF-1 domain; Region: RF-1; cl02875 397945004777 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 397945004778 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 397945004779 putative DNA binding site [nucleotide binding]; other site 397945004780 catalytic residue [active] 397945004781 putative H2TH interface [polypeptide binding]; other site 397945004782 putative catalytic residues [active] 397945004783 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 397945004784 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 397945004785 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 397945004786 active site 397945004787 catalytic tetrad [active] 397945004788 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 397945004789 putative deacylase active site [active] 397945004790 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 397945004791 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945004792 Zn2+ binding site [ion binding]; other site 397945004793 Mg2+ binding site [ion binding]; other site 397945004794 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 397945004795 catalytic motif [active] 397945004796 Catalytic residue [active] 397945004797 Protein of unknown function (DUF520); Region: DUF520; cl00723 397945004798 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 397945004799 FAD binding domain; Region: FAD_binding_4; pfam01565 397945004800 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 397945004801 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 397945004802 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 397945004803 Ligand Binding Site [chemical binding]; other site 397945004804 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 397945004805 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 397945004806 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 397945004807 ArsC family; Region: ArsC; pfam03960 397945004808 putative catalytic residues [active] 397945004809 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 397945004810 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945004811 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945004812 Sporulation related domain; Region: SPOR; cl10051 397945004813 Colicin V production protein; Region: Colicin_V; cl00567 397945004814 amidophosphoribosyltransferase; Provisional; Region: PRK09246 397945004815 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 397945004816 active site 397945004817 tetramer interface [polypeptide binding]; other site 397945004818 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945004819 active site 397945004820 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 397945004821 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 397945004822 homodimer interface [polypeptide binding]; other site 397945004823 substrate-cofactor binding pocket; other site 397945004824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945004825 catalytic residue [active] 397945004826 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 397945004827 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 397945004828 active site 397945004829 HIGH motif; other site 397945004830 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 397945004831 active site 397945004832 KMSKS motif; other site 397945004833 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 397945004834 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 397945004835 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 397945004836 putative substrate translocation pore; other site 397945004837 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 397945004838 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 397945004839 putative substrate translocation pore; other site 397945004840 Protein of unknown function DUF72; Region: DUF72; cl00777 397945004841 Helix-turn-helix domains; Region: HTH; cl00088 397945004842 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945004843 Integrase core domain; Region: rve; cl01316 397945004844 Integrase core domain; Region: rve_3; cl15866 397945004845 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 397945004846 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 397945004847 putative uracil binding site [chemical binding]; other site 397945004848 putative active site [active] 397945004849 recombination factor protein RarA; Reviewed; Region: PRK13342 397945004850 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945004851 Walker A motif; other site 397945004852 ATP binding site [chemical binding]; other site 397945004853 Walker B motif; other site 397945004854 arginine finger; other site 397945004855 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 397945004856 Cache domain; Region: Cache_1; pfam02743 397945004857 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945004858 dimerization interface [polypeptide binding]; other site 397945004859 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945004860 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945004861 dimer interface [polypeptide binding]; other site 397945004862 putative CheW interface [polypeptide binding]; other site 397945004863 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 397945004864 TM-ABC transporter signature motif; other site 397945004865 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 397945004866 TM-ABC transporter signature motif; other site 397945004867 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945004868 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 397945004869 Walker A/P-loop; other site 397945004870 ATP binding site [chemical binding]; other site 397945004871 Q-loop/lid; other site 397945004872 ABC transporter signature motif; other site 397945004873 Walker B; other site 397945004874 D-loop; other site 397945004875 H-loop/switch region; other site 397945004876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945004877 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 397945004878 Walker A/P-loop; other site 397945004879 ATP binding site [chemical binding]; other site 397945004880 Q-loop/lid; other site 397945004881 ABC transporter signature motif; other site 397945004882 Walker B; other site 397945004883 D-loop; other site 397945004884 H-loop/switch region; other site 397945004885 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 397945004886 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 397945004887 Phosphate transporter family; Region: PHO4; cl00396 397945004888 TM2 domain; Region: TM2; cl00984 397945004889 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 397945004890 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 397945004891 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945004892 Coenzyme A binding pocket [chemical binding]; other site 397945004893 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 397945004894 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 397945004895 RimM N-terminal domain; Region: RimM; pfam01782 397945004896 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 397945004897 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 397945004898 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 397945004899 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 397945004900 putative active site [active] 397945004901 putative CoA binding site [chemical binding]; other site 397945004902 nudix motif; other site 397945004903 metal binding site [ion binding]; metal-binding site 397945004904 CobD/Cbib protein; Region: CobD_Cbib; cl00561 397945004905 GTPase RsgA; Reviewed; Region: PRK00098 397945004906 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 397945004907 RNA binding site [nucleotide binding]; other site 397945004908 homodimer interface [polypeptide binding]; other site 397945004909 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 397945004910 GTPase/Zn-binding domain interface [polypeptide binding]; other site 397945004911 GTP/Mg2+ binding site [chemical binding]; other site 397945004912 G4 box; other site 397945004913 G5 box; other site 397945004914 G1 box; other site 397945004915 Switch I region; other site 397945004916 G2 box; other site 397945004917 G3 box; other site 397945004918 Switch II region; other site 397945004919 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 397945004920 aromatic arch; other site 397945004921 DCoH dimer interaction site [polypeptide binding]; other site 397945004922 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 397945004923 DCoH tetramer interaction site [polypeptide binding]; other site 397945004924 substrate binding site [chemical binding]; other site 397945004925 Peptidase family M48; Region: Peptidase_M48; cl12018 397945004926 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 397945004927 putative active site [active] 397945004928 putative substrate binding site [chemical binding]; other site 397945004929 catalytic site [active] 397945004930 dimer interface [polypeptide binding]; other site 397945004931 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 397945004932 ATP binding site [chemical binding]; other site 397945004933 Mg++ binding site [ion binding]; other site 397945004934 motif III; other site 397945004935 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 397945004936 nucleotide binding region [chemical binding]; other site 397945004937 ATP-binding site [chemical binding]; other site 397945004938 PAS domain; Region: PAS_9; pfam13426 397945004939 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 397945004940 PAS domain; Region: PAS_9; pfam13426 397945004941 putative active site [active] 397945004942 heme pocket [chemical binding]; other site 397945004943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945004944 metal binding site [ion binding]; metal-binding site 397945004945 active site 397945004946 I-site; other site 397945004947 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 397945004948 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 397945004949 putative substrate translocation pore; other site 397945004950 Protein of unknown function (DUF461); Region: DUF461; cl01071 397945004951 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 397945004952 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 397945004953 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 397945004954 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 397945004955 hypothetical protein; Provisional; Region: PRK13560 397945004956 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945004957 dimer interface [polypeptide binding]; other site 397945004958 phosphorylation site [posttranslational modification] 397945004959 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 397945004960 ATP binding site [chemical binding]; other site 397945004961 Mg2+ binding site [ion binding]; other site 397945004962 G-X-G motif; other site 397945004963 Response regulator receiver domain; Region: Response_reg; pfam00072 397945004964 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 397945004965 active site 397945004966 phosphorylation site [posttranslational modification] 397945004967 intermolecular recognition site; other site 397945004968 dimerization interface [polypeptide binding]; other site 397945004969 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 397945004970 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 397945004971 active site 397945004972 phosphorylation site [posttranslational modification] 397945004973 intermolecular recognition site; other site 397945004974 dimerization interface [polypeptide binding]; other site 397945004975 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945004976 Walker A motif; other site 397945004977 ATP binding site [chemical binding]; other site 397945004978 Walker B motif; other site 397945004979 arginine finger; other site 397945004980 Helix-turn-helix domains; Region: HTH; cl00088 397945004981 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 397945004982 Transposase domain (DUF772); Region: DUF772; cl15789 397945004983 Helix-turn-helix domains; Region: HTH; cl00088 397945004984 Integrase core domain; Region: rve; cl01316 397945004985 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945004986 Integrase core domain; Region: rve_3; cl15866 397945004987 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945004988 Transposase domain (DUF772); Region: DUF772; cl15789 397945004989 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 397945004990 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 397945004991 active site 397945004992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945004993 NMT1-like family; Region: NMT1_2; cl15260 397945004994 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 397945004995 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 397945004996 metal binding site [ion binding]; metal-binding site 397945004997 dimer interface [polypeptide binding]; other site 397945004998 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 397945004999 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 397945005000 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 397945005001 putative active site [active] 397945005002 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 397945005003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945005004 Family description; Region: UvrD_C_2; cl15862 397945005005 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 397945005006 Phage Tail Collar Domain; Region: Collar; pfam07484 397945005007 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945005008 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 397945005009 Cupin domain; Region: Cupin_2; cl09118 397945005010 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 397945005011 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 397945005012 Imelysin; Region: Peptidase_M75; cl09159 397945005013 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 397945005014 Imelysin; Region: Peptidase_M75; cl09159 397945005015 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 397945005016 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 397945005017 Phosphotransferase enzyme family; Region: APH; pfam01636 397945005018 putative active site [active] 397945005019 putative substrate binding site [chemical binding]; other site 397945005020 ATP binding site [chemical binding]; other site 397945005021 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 397945005022 DNA polymerase I; Provisional; Region: PRK05755 397945005023 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 397945005024 active site 397945005025 metal binding site 1 [ion binding]; metal-binding site 397945005026 putative 5' ssDNA interaction site; other site 397945005027 metal binding site 3; metal-binding site 397945005028 metal binding site 2 [ion binding]; metal-binding site 397945005029 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 397945005030 putative DNA binding site [nucleotide binding]; other site 397945005031 putative metal binding site [ion binding]; other site 397945005032 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 397945005033 active site 397945005034 catalytic site [active] 397945005035 substrate binding site [chemical binding]; other site 397945005036 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 397945005037 active site 397945005038 DNA binding site [nucleotide binding] 397945005039 catalytic site [active] 397945005040 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 397945005041 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 397945005042 Helix-turn-helix domains; Region: HTH; cl00088 397945005043 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 397945005044 dimerization interface [polypeptide binding]; other site 397945005045 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945005046 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945005047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945005048 substrate binding pocket [chemical binding]; other site 397945005049 membrane-bound complex binding site; other site 397945005050 hinge residues; other site 397945005051 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 397945005052 DoxX-like family; Region: DoxX_3; pfam13781 397945005053 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 397945005054 putative NAD(P) binding site [chemical binding]; other site 397945005055 active site 397945005056 Protein of unknown function, DUF393; Region: DUF393; cl01136 397945005057 Predicted transcriptional regulators [Transcription]; Region: COG1510 397945005058 Helix-turn-helix domains; Region: HTH; cl00088 397945005059 Dienelactone hydrolase family; Region: DLH; pfam01738 397945005060 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 397945005061 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 397945005062 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 397945005063 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 397945005064 active sites [active] 397945005065 tetramer interface [polypeptide binding]; other site 397945005066 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945005067 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945005068 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 397945005069 active site 397945005070 phosphorylation site [posttranslational modification] 397945005071 intermolecular recognition site; other site 397945005072 dimerization interface [polypeptide binding]; other site 397945005073 LytTr DNA-binding domain; Region: LytTR; cl04498 397945005074 Histidine kinase; Region: His_kinase; pfam06580 397945005075 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 397945005076 argininosuccinate lyase; Provisional; Region: PRK00855 397945005077 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 397945005078 active sites [active] 397945005079 tetramer interface [polypeptide binding]; other site 397945005080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945005081 NMT1-like family; Region: NMT1_2; cl15260 397945005082 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_7; cd04502 397945005083 active site 397945005084 catalytic triad [active] 397945005085 oxyanion hole [active] 397945005086 OpgC protein; Region: OpgC_C; cl00792 397945005087 Acyltransferase family; Region: Acyl_transf_3; pfam01757 397945005088 Bacterial Ig-like domain; Region: Big_5; cl01012 397945005089 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 397945005090 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 397945005091 MG2 domain; Region: A2M_N; pfam01835 397945005092 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 397945005093 Alpha-2-macroglobulin family; Region: A2M; pfam00207 397945005094 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 397945005095 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 397945005096 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 397945005097 CHASE3 domain; Region: CHASE3; cl05000 397945005098 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945005099 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945005100 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005101 dimer interface [polypeptide binding]; other site 397945005102 putative CheW interface [polypeptide binding]; other site 397945005103 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 397945005104 Transglycosylase; Region: Transgly; cl07896 397945005105 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945005106 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 397945005107 EamA-like transporter family; Region: EamA; cl01037 397945005108 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 397945005109 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 397945005110 phosphate binding site [ion binding]; other site 397945005111 Nitrate and nitrite sensing; Region: NIT; pfam08376 397945005112 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945005113 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005114 dimer interface [polypeptide binding]; other site 397945005115 putative CheW interface [polypeptide binding]; other site 397945005116 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 397945005117 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 397945005118 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 397945005119 apolar tunnel; other site 397945005120 heme binding site [chemical binding]; other site 397945005121 dimerization interface [polypeptide binding]; other site 397945005122 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 397945005123 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 397945005124 active site 397945005125 DNA binding site [nucleotide binding] 397945005126 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 397945005127 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 397945005128 conserved cys residue [active] 397945005129 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 397945005130 conserved cys residue [active] 397945005131 Isochorismatase family; Region: Isochorismatase; pfam00857 397945005132 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 397945005133 catalytic triad [active] 397945005134 conserved cis-peptide bond; other site 397945005135 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 397945005136 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 397945005137 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 397945005138 dimerization interface [polypeptide binding]; other site 397945005139 putative ATP binding site [chemical binding]; other site 397945005140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945005141 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 397945005142 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 397945005143 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945005144 poly(A) polymerase; Region: pcnB; TIGR01942 397945005145 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 397945005146 active site 397945005147 NTP binding site [chemical binding]; other site 397945005148 metal binding triad [ion binding]; metal-binding site 397945005149 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 397945005150 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 397945005151 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 397945005152 catalytic center binding site [active] 397945005153 ATP binding site [chemical binding]; other site 397945005154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945005155 NMT1-like family; Region: NMT1_2; cl15260 397945005156 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 397945005157 dimerization interface [polypeptide binding]; other site 397945005158 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 397945005159 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 397945005160 catalytic loop [active] 397945005161 iron binding site [ion binding]; other site 397945005162 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 397945005163 FAD binding pocket [chemical binding]; other site 397945005164 FAD binding motif [chemical binding]; other site 397945005165 phosphate binding motif [ion binding]; other site 397945005166 beta-alpha-beta structure motif; other site 397945005167 NAD binding pocket [chemical binding]; other site 397945005168 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 397945005169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945005170 NAD(P) binding site [chemical binding]; other site 397945005171 active site 397945005172 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945005173 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945005174 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 397945005175 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945005176 FAD binding site [chemical binding]; other site 397945005177 substrate binding pocket [chemical binding]; other site 397945005178 catalytic base [active] 397945005179 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945005180 Helix-turn-helix domains; Region: HTH; cl00088 397945005181 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 397945005182 dimerization interface [polypeptide binding]; other site 397945005183 DNA topoisomerase; Region: Topoisom_bac; pfam01131 397945005184 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 397945005185 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 397945005186 cysteine synthase B; Region: cysM; TIGR01138 397945005187 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 397945005188 dimer interface [polypeptide binding]; other site 397945005189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945005190 catalytic residue [active] 397945005191 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 397945005192 nudix motif; other site 397945005193 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 397945005194 CPxP motif; other site 397945005195 Helix-turn-helix domains; Region: HTH; cl00088 397945005196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945005197 Integrase core domain; Region: rve; cl01316 397945005198 Integrase core domain; Region: rve_3; cl15866 397945005199 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 397945005200 active site 397945005201 tetramer interface; other site 397945005202 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 397945005203 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 397945005204 HIGH motif; other site 397945005205 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 397945005206 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 397945005207 active site 397945005208 KMSKS motif; other site 397945005209 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 397945005210 tRNA binding surface [nucleotide binding]; other site 397945005211 anticodon binding site; other site 397945005212 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 397945005213 Peptidase family M48; Region: Peptidase_M48; cl12018 397945005214 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 397945005215 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945005216 Zn binding site [ion binding]; other site 397945005217 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945005218 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 397945005219 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945005220 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 397945005221 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 397945005222 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 397945005223 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 397945005224 active site 397945005225 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 397945005226 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 397945005227 domain interfaces; other site 397945005228 active site 397945005229 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 397945005230 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 397945005231 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 397945005232 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 397945005233 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 397945005234 Domain of unknown function DUF20; Region: UPF0118; pfam01594 397945005235 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 397945005236 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 397945005237 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 397945005238 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 397945005239 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945005240 active site 397945005241 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 397945005242 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945005243 active site 397945005244 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 397945005245 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 it...; Region: TST_Repeat_1; cd01448 397945005246 active site residue [active] 397945005247 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 397945005248 active site residue [active] 397945005249 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 397945005250 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 397945005251 [2Fe-2S] cluster binding site [ion binding]; other site 397945005252 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 397945005253 alpha subunit interface [polypeptide binding]; other site 397945005254 active site 397945005255 substrate binding site [chemical binding]; other site 397945005256 Fe binding site [ion binding]; other site 397945005257 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 397945005258 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 397945005259 substrate binding pocket [chemical binding]; other site 397945005260 substrate-Mg2+ binding site; other site 397945005261 aspartate-rich region 1; other site 397945005262 aspartate-rich region 2; other site 397945005263 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 397945005264 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 397945005265 TPP-binding site; other site 397945005266 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 397945005267 PYR/PP interface [polypeptide binding]; other site 397945005268 dimer interface [polypeptide binding]; other site 397945005269 TPP binding site [chemical binding]; other site 397945005270 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 397945005271 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945005272 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945005273 DctM-like transporters; Region: DctM; pfam06808 397945005274 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945005275 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945005276 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945005277 Conserved TM helix; Region: TM_helix; pfam05552 397945005278 trehalose synthase; Region: treS_nterm; TIGR02456 397945005279 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 397945005280 active site 397945005281 catalytic site [active] 397945005282 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 397945005283 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 397945005284 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 397945005285 active site 397945005286 homodimer interface [polypeptide binding]; other site 397945005287 catalytic site [active] 397945005288 acceptor binding site [chemical binding]; other site 397945005289 trehalose synthase; Region: treS_nterm; TIGR02456 397945005290 glycogen branching enzyme; Provisional; Region: PRK12313 397945005291 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 397945005292 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 397945005293 active site 397945005294 catalytic site [active] 397945005295 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 397945005296 BCCT family transporter; Region: BCCT; cl00569 397945005297 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 397945005298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945005299 Walker A/P-loop; other site 397945005300 ATP binding site [chemical binding]; other site 397945005301 Q-loop/lid; other site 397945005302 ABC transporter signature motif; other site 397945005303 Walker B; other site 397945005304 D-loop; other site 397945005305 H-loop/switch region; other site 397945005306 TOBE domain; Region: TOBE_2; cl01440 397945005307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 397945005308 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945005309 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 397945005310 Helix-turn-helix domains; Region: HTH; cl00088 397945005311 TOBE domain; Region: TOBE_2; cl01440 397945005312 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 397945005313 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945005314 ABC transporter signature motif; other site 397945005315 Walker B; other site 397945005316 D-loop; other site 397945005317 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945005318 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005319 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 397945005320 active site 397945005321 phosphorylation site [posttranslational modification] 397945005322 intermolecular recognition site; other site 397945005323 dimerization interface [polypeptide binding]; other site 397945005324 LytTr DNA-binding domain; Region: LytTR; cl04498 397945005325 Histidine kinase; Region: His_kinase; pfam06580 397945005326 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 397945005327 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 397945005328 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945005329 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945005330 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 397945005331 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 397945005332 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 397945005333 Protein export membrane protein; Region: SecD_SecF; cl14618 397945005334 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945005335 Bacitracin resistance protein BacA; Region: BacA; cl00858 397945005336 PAS fold; Region: PAS_4; pfam08448 397945005337 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 397945005338 putative active site [active] 397945005339 heme pocket [chemical binding]; other site 397945005340 PAS domain; Region: PAS_9; pfam13426 397945005341 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 397945005342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945005343 metal binding site [ion binding]; metal-binding site 397945005344 active site 397945005345 I-site; other site 397945005346 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945005347 FAD binding domain; Region: FAD_binding_4; pfam01565 397945005348 Berberine and berberine like; Region: BBE; pfam08031 397945005349 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945005350 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 397945005351 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 that...; Region: proteasome_beta_bacterial; cd03765 397945005352 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945005353 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945005354 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945005355 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945005356 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945005357 RHS Repeat; Region: RHS_repeat; cl11982 397945005358 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945005359 RHS Repeat; Region: RHS_repeat; cl11982 397945005360 RHS Repeat; Region: RHS_repeat; cl11982 397945005361 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945005362 RHS protein; Region: RHS; pfam03527 397945005363 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945005364 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 397945005365 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 397945005366 NAD binding site [chemical binding]; other site 397945005367 homotetramer interface [polypeptide binding]; other site 397945005368 homodimer interface [polypeptide binding]; other site 397945005369 substrate binding site [chemical binding]; other site 397945005370 active site 397945005371 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 397945005372 MutS domain I; Region: MutS_I; pfam01624 397945005373 MutS domain II; Region: MutS_II; pfam05188 397945005374 MutS family domain IV; Region: MutS_IV; pfam05190 397945005375 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945005376 Walker A/P-loop; other site 397945005377 ATP binding site [chemical binding]; other site 397945005378 Q-loop/lid; other site 397945005379 ABC transporter signature motif; other site 397945005380 Walker B; other site 397945005381 D-loop; other site 397945005382 H-loop/switch region; other site 397945005383 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945005384 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 397945005385 N-terminal plug; other site 397945005386 ligand-binding site [chemical binding]; other site 397945005387 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 397945005388 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 397945005389 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945005390 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 397945005391 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 397945005392 PAS domain; Region: PAS_9; pfam13426 397945005393 putative active site [active] 397945005394 heme pocket [chemical binding]; other site 397945005395 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 397945005396 putative diguanylate cyclase; Provisional; Region: PRK09776 397945005397 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 397945005398 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945005399 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 397945005400 putative active site [active] 397945005401 heme pocket [chemical binding]; other site 397945005402 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945005403 dimer interface [polypeptide binding]; other site 397945005404 phosphorylation site [posttranslational modification] 397945005405 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 397945005406 ATP binding site [chemical binding]; other site 397945005407 Mg2+ binding site [ion binding]; other site 397945005408 G-X-G motif; other site 397945005409 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005410 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 397945005411 active site 397945005412 phosphorylation site [posttranslational modification] 397945005413 intermolecular recognition site; other site 397945005414 dimerization interface [polypeptide binding]; other site 397945005415 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005416 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 397945005417 active site 397945005418 phosphorylation site [posttranslational modification] 397945005419 intermolecular recognition site; other site 397945005420 dimerization interface [polypeptide binding]; other site 397945005421 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 397945005422 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 397945005423 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 397945005424 active site 397945005425 phosphorylation site [posttranslational modification] 397945005426 intermolecular recognition site; other site 397945005427 dimerization interface [polypeptide binding]; other site 397945005428 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945005429 Zn2+ binding site [ion binding]; other site 397945005430 Mg2+ binding site [ion binding]; other site 397945005431 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 397945005432 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945005433 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 397945005434 Walker A/P-loop; other site 397945005435 ATP binding site [chemical binding]; other site 397945005436 Q-loop/lid; other site 397945005437 ABC transporter signature motif; other site 397945005438 Walker B; other site 397945005439 D-loop; other site 397945005440 H-loop/switch region; other site 397945005441 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 397945005442 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 397945005443 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 397945005444 mycofactocin system glycosyltransferase; Region: actino_glycTran; TIGR03965 397945005445 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 397945005446 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 397945005447 active site 397945005448 dimerization interface [polypeptide binding]; other site 397945005449 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 397945005450 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 397945005451 Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake. NatB possess six putative...; Region: ABC_NatA_like; cd03267 397945005452 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 397945005453 Walker A/P-loop; other site 397945005454 ATP binding site [chemical binding]; other site 397945005455 Q-loop/lid; other site 397945005456 ABC transporter signature motif; other site 397945005457 Walker B; other site 397945005458 D-loop; other site 397945005459 H-loop/switch region; other site 397945005460 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 397945005461 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 397945005462 active site 397945005463 homotetramer interface [polypeptide binding]; other site 397945005464 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 397945005465 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 397945005466 serine O-acetyltransferase; Region: cysE; TIGR01172 397945005467 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 397945005468 trimer interface [polypeptide binding]; other site 397945005469 active site 397945005470 substrate binding site [chemical binding]; other site 397945005471 CoA binding site [chemical binding]; other site 397945005472 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 397945005473 MPT binding site; other site 397945005474 trimer interface [polypeptide binding]; other site 397945005475 Protein of unknown function (DUF615); Region: DUF615; cl01147 397945005476 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 397945005477 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 397945005478 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 397945005479 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 397945005480 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945005481 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 397945005482 tetramerization interface [polypeptide binding]; other site 397945005483 NAD(P) binding site [chemical binding]; other site 397945005484 catalytic residues [active] 397945005485 SAF domain; Region: SAF; cl00555 397945005486 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 397945005487 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 397945005488 NMT1-like family; Region: NMT1_2; cl15260 397945005489 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945005490 Helix-turn-helix domains; Region: HTH; cl00088 397945005491 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 397945005492 dimerization interface [polypeptide binding]; other site 397945005493 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 397945005494 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 397945005495 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 397945005496 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 397945005497 active site 397945005498 nucleophile elbow; other site 397945005499 tartrate dehydrogenase; Provisional; Region: PRK08194 397945005500 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 397945005501 transcriptional activator TtdR; Provisional; Region: PRK09801 397945005502 Helix-turn-helix domains; Region: HTH; cl00088 397945005503 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 397945005504 putative effector binding pocket; other site 397945005505 putative dimerization interface [polypeptide binding]; other site 397945005506 Helix-turn-helix domains; Region: HTH; cl00088 397945005507 WYL domain; Region: WYL; cl14852 397945005508 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945005509 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 397945005510 putative C-terminal domain interface [polypeptide binding]; other site 397945005511 putative GSH binding site (G-site) [chemical binding]; other site 397945005512 putative dimer interface [polypeptide binding]; other site 397945005513 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 397945005514 dimer interface [polypeptide binding]; other site 397945005515 N-terminal domain interface [polypeptide binding]; other site 397945005516 putative substrate binding pocket (H-site) [chemical binding]; other site 397945005517 GatB domain; Region: GatB_Yqey; cl11497 397945005518 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 397945005519 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 397945005520 NIPSNAP; Region: NIPSNAP; pfam07978 397945005521 HI0933-like protein; Region: HI0933_like; pfam03486 397945005522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945005523 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 397945005524 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 397945005525 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 397945005526 Sulfate transporter family; Region: Sulfate_transp; cl15842 397945005527 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 397945005528 active site clefts [active] 397945005529 zinc binding site [ion binding]; other site 397945005530 dimer interface [polypeptide binding]; other site 397945005531 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 397945005532 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 397945005533 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 397945005534 Cellulose binding domain; Region: CBM_2; cl02709 397945005535 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 397945005536 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 397945005537 glycosyl transferase family protein; Provisional; Region: PRK08136 397945005538 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 397945005539 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 397945005540 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 397945005541 [4Fe-4S] binding site [ion binding]; other site 397945005542 molybdopterin cofactor binding site; other site 397945005543 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 397945005544 molybdopterin cofactor binding site; other site 397945005545 nitrite reductase subunit NirD; Provisional; Region: PRK14989 397945005546 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 397945005547 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 397945005548 [2Fe-2S] cluster binding site [ion binding]; other site 397945005549 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 397945005550 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945005551 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 397945005552 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 397945005553 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 397945005554 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945005555 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005556 dimer interface [polypeptide binding]; other site 397945005557 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 397945005558 putative CheW interface [polypeptide binding]; other site 397945005559 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 397945005560 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 397945005561 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 397945005562 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945005563 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945005564 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 397945005565 PAS domain; Region: PAS_9; pfam13426 397945005566 putative active site [active] 397945005567 heme pocket [chemical binding]; other site 397945005568 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 397945005569 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945005570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005571 dimer interface [polypeptide binding]; other site 397945005572 putative CheW interface [polypeptide binding]; other site 397945005573 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 397945005574 FOG: CBS domain [General function prediction only]; Region: COG0517 397945005575 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 397945005576 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 397945005577 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 397945005578 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 397945005579 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 397945005580 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 397945005581 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945005582 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 397945005583 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945005584 dimerization interface [polypeptide binding]; other site 397945005585 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 397945005586 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 397945005587 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 397945005588 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945005589 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005590 putative CheW interface [polypeptide binding]; other site 397945005591 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005592 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 397945005593 active site 397945005594 phosphorylation site [posttranslational modification] 397945005595 intermolecular recognition site; other site 397945005596 dimerization interface [polypeptide binding]; other site 397945005597 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 397945005598 putative phosphate binding site [ion binding]; other site 397945005599 putative catalytic site [active] 397945005600 active site 397945005601 metal binding site A [ion binding]; metal-binding site 397945005602 DNA binding site [nucleotide binding] 397945005603 putative AP binding site [nucleotide binding]; other site 397945005604 putative metal binding site B [ion binding]; other site 397945005605 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 397945005606 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 397945005607 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 397945005608 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945005609 Walker A/P-loop; other site 397945005610 ATP binding site [chemical binding]; other site 397945005611 Q-loop/lid; other site 397945005612 ABC transporter signature motif; other site 397945005613 Walker B; other site 397945005614 D-loop; other site 397945005615 H-loop/switch region; other site 397945005616 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 397945005617 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945005618 putative substrate translocation pore; other site 397945005619 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945005620 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945005621 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945005622 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945005623 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 397945005624 PAAR motif; Region: PAAR_motif; cl15808 397945005625 Helix-turn-helix domains; Region: HTH; cl00088 397945005626 Integrase core domain; Region: rve; cl01316 397945005627 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945005628 Integrase core domain; Region: rve_3; cl15866 397945005629 Helix-turn-helix domains; Region: HTH; cl00088 397945005630 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945005631 Integrase core domain; Region: rve; cl01316 397945005632 Integrase core domain; Region: rve_3; cl15866 397945005633 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 397945005634 cystathionine beta-lyase; Provisional; Region: PRK07050 397945005635 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 397945005636 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945005637 catalytic residue [active] 397945005638 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 397945005639 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 397945005640 S-adenosylmethionine binding site [chemical binding]; other site 397945005641 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 397945005642 RNA/DNA binding site [nucleotide binding]; other site 397945005643 RRM dimerization site [polypeptide binding]; other site 397945005644 Helix-turn-helix domains; Region: HTH; cl00088 397945005645 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 397945005646 NADP+ binding site [chemical binding]; other site 397945005647 folate binding site [chemical binding]; other site 397945005648 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 397945005649 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 397945005650 Walker A/P-loop; other site 397945005651 ATP binding site [chemical binding]; other site 397945005652 Q-loop/lid; other site 397945005653 ABC transporter signature motif; other site 397945005654 Walker B; other site 397945005655 D-loop; other site 397945005656 H-loop/switch region; other site 397945005657 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945005658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945005659 dimer interface [polypeptide binding]; other site 397945005660 conserved gate region; other site 397945005661 putative PBP binding loops; other site 397945005662 ABC-ATPase subunit interface; other site 397945005663 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 397945005664 NMT1-like family; Region: NMT1_2; cl15260 397945005665 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 397945005666 ANTAR domain; Region: ANTAR; cl04297 397945005667 UGMP family protein; Validated; Region: PRK09604 397945005668 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 397945005669 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 397945005670 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945005671 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 397945005672 putative ligand binding site [chemical binding]; other site 397945005673 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945005674 Helix-turn-helix domains; Region: HTH; cl00088 397945005675 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 397945005676 NnrS protein; Region: NnrS; cl01258 397945005677 NnrS protein; Region: NnrS; cl01258 397945005678 Transglycosylase SLT domain; Region: SLT_2; pfam13406 397945005679 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 397945005680 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945005681 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 397945005682 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 397945005683 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 397945005684 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 397945005685 MoxR-like ATPases [General function prediction only]; Region: COG0714 397945005686 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945005687 Walker A motif; other site 397945005688 ATP binding site [chemical binding]; other site 397945005689 Walker B motif; other site 397945005690 arginine finger; other site 397945005691 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 397945005692 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 397945005693 enoyl-CoA hydratase; Validated; Region: PRK08139 397945005694 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 397945005695 substrate binding site [chemical binding]; other site 397945005696 oxyanion hole (OAH) forming residues; other site 397945005697 trimer interface [polypeptide binding]; other site 397945005698 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945005699 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 397945005700 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945005701 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 397945005702 Ligand binding site [chemical binding]; other site 397945005703 Electron transfer flavoprotein domain; Region: ETF; pfam01012 397945005704 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 397945005705 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 397945005706 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 397945005707 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 397945005708 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 397945005709 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945005710 active site 397945005711 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 397945005712 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 397945005713 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 397945005714 FMN binding site [chemical binding]; other site 397945005715 substrate binding site [chemical binding]; other site 397945005716 putative catalytic residue [active] 397945005717 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 397945005718 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 397945005719 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945005720 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945005721 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945005722 metal binding site [ion binding]; metal-binding site 397945005723 putative dimer interface [polypeptide binding]; other site 397945005724 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945005725 Helix-turn-helix domains; Region: HTH; cl00088 397945005726 hypothetical protein; Provisional; Region: PRK05965 397945005727 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 397945005728 inhibitor-cofactor binding pocket; inhibition site 397945005729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945005730 catalytic residue [active] 397945005731 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 397945005732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945005733 Cupin domain; Region: Cupin_2; cl09118 397945005734 Cupin domain; Region: Cupin_2; cl09118 397945005735 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 397945005736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945005737 Coenzyme A binding pocket [chemical binding]; other site 397945005738 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 397945005739 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945005740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945005741 FAD dependent oxidoreductase; Region: DAO; pfam01266 397945005742 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 397945005743 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 397945005744 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 397945005745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945005746 dimer interface [polypeptide binding]; other site 397945005747 conserved gate region; other site 397945005748 putative PBP binding loops; other site 397945005749 ABC-ATPase subunit interface; other site 397945005750 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945005751 dimer interface [polypeptide binding]; other site 397945005752 conserved gate region; other site 397945005753 ABC-ATPase subunit interface; other site 397945005754 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 397945005755 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 397945005756 Walker A/P-loop; other site 397945005757 ATP binding site [chemical binding]; other site 397945005758 Q-loop/lid; other site 397945005759 ABC transporter signature motif; other site 397945005760 Walker B; other site 397945005761 D-loop; other site 397945005762 H-loop/switch region; other site 397945005763 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 397945005764 Walker A/P-loop; other site 397945005765 ATP binding site [chemical binding]; other site 397945005766 Q-loop/lid; other site 397945005767 ABC transporter signature motif; other site 397945005768 Walker B; other site 397945005769 D-loop; other site 397945005770 H-loop/switch region; other site 397945005771 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945005772 tartrate dehydrogenase; Provisional; Region: PRK08194 397945005773 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 397945005774 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945005775 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 397945005776 tetramerization interface [polypeptide binding]; other site 397945005777 NAD(P) binding site [chemical binding]; other site 397945005778 catalytic residues [active] 397945005779 putative metal dependent hydrolase; Provisional; Region: PRK11598 397945005780 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 397945005781 Sulfatase; Region: Sulfatase; cl10460 397945005782 Predicted esterase [General function prediction only]; Region: COG0627 397945005783 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 397945005784 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 397945005785 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 397945005786 substrate binding site [chemical binding]; other site 397945005787 catalytic Zn binding site [ion binding]; other site 397945005788 NAD binding site [chemical binding]; other site 397945005789 structural Zn binding site [ion binding]; other site 397945005790 dimer interface [polypeptide binding]; other site 397945005791 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 397945005792 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 397945005793 conserved cys residue [active] 397945005794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945005795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945005796 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945005797 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945005798 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 397945005799 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 397945005800 dimer interface [polypeptide binding]; other site 397945005801 Citrate synthase; Region: Citrate_synt; pfam00285 397945005802 active site 397945005803 citrylCoA binding site [chemical binding]; other site 397945005804 NADH binding [chemical binding]; other site 397945005805 cationic pore residues; other site 397945005806 oxalacetate/citrate binding site [chemical binding]; other site 397945005807 coenzyme A binding site [chemical binding]; other site 397945005808 catalytic triad [active] 397945005809 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 397945005810 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 397945005811 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 397945005812 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 397945005813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945005814 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 397945005815 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 397945005816 SdhC subunit interface [polypeptide binding]; other site 397945005817 proximal heme binding site [chemical binding]; other site 397945005818 cardiolipin binding site; other site 397945005819 Iron-sulfur protein interface; other site 397945005820 proximal quinone binding site [chemical binding]; other site 397945005821 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 397945005822 Iron-sulfur protein interface; other site 397945005823 proximal quinone binding site [chemical binding]; other site 397945005824 SdhD (CybS) interface [polypeptide binding]; other site 397945005825 proximal heme binding site [chemical binding]; other site 397945005826 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 397945005827 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945005828 DNA-binding site [nucleotide binding]; DNA binding site 397945005829 UTRA domain; Region: UTRA; cl01230 397945005830 malate dehydrogenase; Provisional; Region: PRK05442 397945005831 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 397945005832 NAD(P) binding site [chemical binding]; other site 397945005833 dimer interface [polypeptide binding]; other site 397945005834 malate binding site [chemical binding]; other site 397945005835 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 397945005836 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 397945005837 S-adenosylmethionine binding site [chemical binding]; other site 397945005838 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 397945005839 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 397945005840 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 397945005841 substrate binding site [chemical binding]; other site 397945005842 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 397945005843 substrate binding site [chemical binding]; other site 397945005844 ligand binding site [chemical binding]; other site 397945005845 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945005846 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 397945005847 non-specific DNA binding site [nucleotide binding]; other site 397945005848 salt bridge; other site 397945005849 sequence-specific DNA binding site [nucleotide binding]; other site 397945005850 putative protease; Provisional; Region: PRK15452 397945005851 Peptidase family U32; Region: Peptidase_U32; cl03113 397945005852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945005853 Helix-turn-helix domains; Region: HTH; cl00088 397945005854 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 397945005855 dimerization interface [polypeptide binding]; other site 397945005856 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 397945005857 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 397945005858 active site 397945005859 phosphorylation site [posttranslational modification] 397945005860 intermolecular recognition site; other site 397945005861 dimerization interface [polypeptide binding]; other site 397945005862 Helix-turn-helix domains; Region: HTH; cl00088 397945005863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 397945005864 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 397945005865 dimer interface [polypeptide binding]; other site 397945005866 phosphorylation site [posttranslational modification] 397945005867 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 397945005868 ATP binding site [chemical binding]; other site 397945005869 Mg2+ binding site [ion binding]; other site 397945005870 G-X-G motif; other site 397945005871 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 397945005872 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 397945005873 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 397945005874 Subunit I/III interface [polypeptide binding]; other site 397945005875 Subunit III/IV interface [polypeptide binding]; other site 397945005876 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 397945005877 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 397945005878 D-pathway; other site 397945005879 Putative ubiquinol binding site [chemical binding]; other site 397945005880 Low-spin heme (heme b) binding site [chemical binding]; other site 397945005881 Putative water exit pathway; other site 397945005882 Binuclear center (heme o3/CuB) [ion binding]; other site 397945005883 K-pathway; other site 397945005884 Putative proton exit pathway; other site 397945005885 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 397945005886 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 397945005887 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 397945005888 metabolite-proton symporter; Region: 2A0106; TIGR00883 397945005889 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 397945005890 putative substrate translocation pore; other site 397945005891 Gram-negative bacterial tonB protein; Region: TonB; cl10048 397945005892 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 397945005893 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 397945005894 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 397945005895 active site 397945005896 aminotransferase; Validated; Region: PRK07337 397945005897 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 397945005898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945005899 homodimer interface [polypeptide binding]; other site 397945005900 catalytic residue [active] 397945005901 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 397945005902 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 397945005903 homopentamer interface [polypeptide binding]; other site 397945005904 active site 397945005905 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 397945005906 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 397945005907 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 397945005908 dimerization interface [polypeptide binding]; other site 397945005909 active site 397945005910 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 397945005911 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 397945005912 catalytic loop [active] 397945005913 iron binding site [ion binding]; other site 397945005914 Domain of unknown function (DUF427); Region: DUF427; cl00998 397945005915 PAS fold; Region: PAS_4; pfam08448 397945005916 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 397945005917 putative active site [active] 397945005918 heme pocket [chemical binding]; other site 397945005919 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 397945005920 PAS domain; Region: PAS_9; pfam13426 397945005921 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945005922 dimer interface [polypeptide binding]; other site 397945005923 phosphorylation site [posttranslational modification] 397945005924 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 397945005925 ATP binding site [chemical binding]; other site 397945005926 Mg2+ binding site [ion binding]; other site 397945005927 G-X-G motif; other site 397945005928 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945005929 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945005930 substrate binding pocket [chemical binding]; other site 397945005931 membrane-bound complex binding site; other site 397945005932 hinge residues; other site 397945005933 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005934 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 397945005935 active site 397945005936 phosphorylation site [posttranslational modification] 397945005937 intermolecular recognition site; other site 397945005938 dimerization interface [polypeptide binding]; other site 397945005939 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 397945005940 DNA binding residues [nucleotide binding] 397945005941 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005942 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 397945005943 active site 397945005944 phosphorylation site [posttranslational modification] 397945005945 intermolecular recognition site; other site 397945005946 dimerization interface [polypeptide binding]; other site 397945005947 Response regulator receiver domain; Region: Response_reg; pfam00072 397945005948 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 397945005949 active site 397945005950 phosphorylation site [posttranslational modification] 397945005951 intermolecular recognition site; other site 397945005952 dimerization interface [polypeptide binding]; other site 397945005953 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945005954 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945005955 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945005956 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945005957 dimer interface [polypeptide binding]; other site 397945005958 putative CheW interface [polypeptide binding]; other site 397945005959 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 397945005960 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 397945005961 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 397945005962 galactonate dehydratase; Provisional; Region: PRK14017 397945005963 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 397945005964 putative active site pocket [active] 397945005965 putative metal binding site [ion binding]; other site 397945005966 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 397945005967 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 397945005968 active site 397945005969 intersubunit interface [polypeptide binding]; other site 397945005970 catalytic residue [active] 397945005971 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 397945005972 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 397945005973 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 397945005974 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 397945005975 inhibitor site; inhibition site 397945005976 active site 397945005977 dimer interface [polypeptide binding]; other site 397945005978 catalytic residue [active] 397945005979 Dehydratase family; Region: ILVD_EDD; cl00340 397945005980 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 397945005981 TM-ABC transporter signature motif; other site 397945005982 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 397945005983 TM-ABC transporter signature motif; other site 397945005984 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 397945005985 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 397945005986 Walker A/P-loop; other site 397945005987 ATP binding site [chemical binding]; other site 397945005988 Q-loop/lid; other site 397945005989 ABC transporter signature motif; other site 397945005990 Walker B; other site 397945005991 D-loop; other site 397945005992 H-loop/switch region; other site 397945005993 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 397945005994 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 397945005995 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 397945005996 TM-ABC transporter signature motif; other site 397945005997 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 397945005998 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 397945005999 Walker A/P-loop; other site 397945006000 ATP binding site [chemical binding]; other site 397945006001 Q-loop/lid; other site 397945006002 ABC transporter signature motif; other site 397945006003 Walker B; other site 397945006004 D-loop; other site 397945006005 H-loop/switch region; other site 397945006006 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 397945006007 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 397945006008 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 397945006009 putative ligand binding site [chemical binding]; other site 397945006010 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 397945006011 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 397945006012 putative ligand binding site [chemical binding]; other site 397945006013 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 397945006014 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945006015 NAD(P) binding site [chemical binding]; other site 397945006016 catalytic residues [active] 397945006017 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945006018 Helix-turn-helix domains; Region: HTH; cl00088 397945006019 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 397945006020 putative dimerization interface [polypeptide binding]; other site 397945006021 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 397945006022 classical (c) SDRs; Region: SDR_c; cd05233 397945006023 NAD(P) binding site [chemical binding]; other site 397945006024 active site 397945006025 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945006026 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 397945006027 active site 397945006028 catalytic residues [active] 397945006029 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 397945006030 thiamine pyrophosphate protein; Validated; Region: PRK08199 397945006031 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 397945006032 PYR/PP interface [polypeptide binding]; other site 397945006033 dimer interface [polypeptide binding]; other site 397945006034 TPP binding site [chemical binding]; other site 397945006035 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 397945006036 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 397945006037 TPP-binding site [chemical binding]; other site 397945006038 Predicted ATPase [General function prediction only]; Region: COG4637 397945006039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945006040 LysE type translocator; Region: LysE; cl00565 397945006041 GAF domain; Region: GAF; cl15785 397945006042 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945006043 phosphorylation site [posttranslational modification] 397945006044 dimer interface [polypeptide binding]; other site 397945006045 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 397945006046 ATP binding site [chemical binding]; other site 397945006047 Mg2+ binding site [ion binding]; other site 397945006048 G-X-G motif; other site 397945006049 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 397945006050 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 397945006051 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 397945006052 GTP/Mg2+ binding site [chemical binding]; other site 397945006053 G4 box; other site 397945006054 G5 box; other site 397945006055 G1 box; other site 397945006056 Switch I region; other site 397945006057 G2 box; other site 397945006058 G3 box; other site 397945006059 Switch II region; other site 397945006060 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945006061 trimer interface [polypeptide binding]; other site 397945006062 eyelet of channel; other site 397945006063 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 397945006064 Helix-turn-helix domains; Region: HTH; cl00088 397945006065 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945006066 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 397945006067 homotrimer interaction site [polypeptide binding]; other site 397945006068 putative active site [active] 397945006069 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 397945006070 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 397945006071 DNA binding residues [nucleotide binding] 397945006072 dimer interface [polypeptide binding]; other site 397945006073 [2Fe-2S] cluster binding site [ion binding]; other site 397945006074 MgtC family; Region: MgtC; pfam02308 397945006075 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 397945006076 active site 397945006077 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 397945006078 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 397945006079 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 397945006080 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945006081 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 397945006082 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945006083 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945006084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006085 dimer interface [polypeptide binding]; other site 397945006086 putative CheW interface [polypeptide binding]; other site 397945006087 enterobactin exporter EntS; Provisional; Region: PRK10489 397945006088 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 397945006089 putative substrate translocation pore; other site 397945006090 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 397945006091 pseudouridine synthase; Region: TIGR00093 397945006092 active site 397945006093 Peptidase family M23; Region: Peptidase_M23; pfam01551 397945006094 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 397945006095 PLD-like domain; Region: PLDc_2; pfam13091 397945006096 putative active site [active] 397945006097 catalytic site [active] 397945006098 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 397945006099 PLD-like domain; Region: PLDc_2; pfam13091 397945006100 putative active site [active] 397945006101 catalytic site [active] 397945006102 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 397945006103 putative hydrophobic ligand binding site [chemical binding]; other site 397945006104 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 397945006105 substrate binding pocket [chemical binding]; other site 397945006106 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 397945006107 META domain; Region: META; cl01245 397945006108 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945006109 Helix-turn-helix domains; Region: HTH; cl00088 397945006110 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 397945006111 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945006112 active site 397945006113 HIGH motif; other site 397945006114 nucleotide binding site [chemical binding]; other site 397945006115 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 397945006116 KMSKS motif; other site 397945006117 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 397945006118 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 397945006119 trimer interface [polypeptide binding]; other site 397945006120 active site 397945006121 dimer interface [polypeptide binding]; other site 397945006122 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945006123 RF-1 domain; Region: RF-1; cl02875 397945006124 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 397945006125 putative active site [active] 397945006126 metal binding site [ion binding]; metal-binding site 397945006127 Predicted esterase [General function prediction only]; Region: COG0400 397945006128 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 397945006129 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 397945006130 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 397945006131 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 397945006132 Helix-turn-helix domains; Region: HTH; cl00088 397945006133 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945006134 Helix-turn-helix domains; Region: HTH; cl00088 397945006135 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 397945006136 dimerization interface [polypeptide binding]; other site 397945006137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945006138 NMT1-like family; Region: NMT1_2; cl15260 397945006139 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 397945006140 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945006141 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 397945006142 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 397945006143 putative active site [active] 397945006144 putative metal binding site [ion binding]; other site 397945006145 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 397945006146 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 397945006147 substrate binding site [chemical binding]; other site 397945006148 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 397945006149 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 397945006150 substrate binding site [chemical binding]; other site 397945006151 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 397945006152 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 397945006153 TPR repeat; Region: TPR_11; pfam13414 397945006154 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 397945006155 binding surface 397945006156 TPR motif; other site 397945006157 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 397945006158 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 397945006159 active site 397945006160 HIGH motif; other site 397945006161 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 397945006162 KMSKS motif; other site 397945006163 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 397945006164 tRNA binding surface [nucleotide binding]; other site 397945006165 anticodon binding site; other site 397945006166 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945006167 endonuclease III; Region: ENDO3c; smart00478 397945006168 minor groove reading motif; other site 397945006169 helix-hairpin-helix signature motif; other site 397945006170 substrate binding pocket [chemical binding]; other site 397945006171 active site 397945006172 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 397945006173 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 397945006174 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 397945006175 Ligand Binding Site [chemical binding]; other site 397945006176 TilS substrate binding domain; Region: TilS; pfam09179 397945006177 aspartate kinase; Reviewed; Region: PRK06635 397945006178 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 397945006179 putative nucleotide binding site [chemical binding]; other site 397945006180 putative catalytic residues [active] 397945006181 putative Mg ion binding site [ion binding]; other site 397945006182 putative aspartate binding site [chemical binding]; other site 397945006183 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 397945006184 putative allosteric regulatory site; other site 397945006185 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 397945006186 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 397945006187 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 397945006188 DNA binding site [nucleotide binding] 397945006189 Int/Topo IB signature motif; other site 397945006190 active site 397945006191 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 397945006192 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 397945006193 non-specific DNA binding site [nucleotide binding]; other site 397945006194 salt bridge; other site 397945006195 sequence-specific DNA binding site [nucleotide binding]; other site 397945006196 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945006197 Catalytic site [active] 397945006198 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945006199 Helix-turn-helix domains; Region: HTH; cl00088 397945006200 Helix-turn-helix domains; Region: HTH; cl00088 397945006201 NinB protein; Region: NinB; cl14671 397945006202 large terminase protein; Provisional; Region: 17; PHA02533 397945006203 Terminase-like family; Region: Terminase_6; pfam03237 397945006204 chromosome segregation protein; Provisional; Region: PRK02224 397945006205 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 397945006206 active site 397945006207 catalytic triad [active] 397945006208 oxyanion hole [active] 397945006209 virion protein; Provisional; Region: V; PHA02564 397945006210 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 397945006211 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 397945006212 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 397945006213 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945006214 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945006215 P-loop; other site 397945006216 Magnesium ion binding site [ion binding]; other site 397945006217 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945006218 Magnesium ion binding site [ion binding]; other site 397945006219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945006220 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 397945006221 Active Sites [active] 397945006222 Replication initiation factor; Region: Rep_trans; pfam02486 397945006223 CTX phage RstB protein; Region: CTX_RstB; pfam07459 397945006224 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 397945006225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945006226 putative assembly protein; Region: PHA00350 397945006227 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 397945006228 catalytic residues [active] 397945006229 catalytic nucleophile [active] 397945006230 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945006231 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945006232 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945006233 Synaptic Site I dimer interface [polypeptide binding]; other site 397945006234 DNA binding site [nucleotide binding] 397945006235 Helix-turn-helix domains; Region: HTH; cl00088 397945006236 putative transposase OrfB; Reviewed; Region: PHA02517 397945006237 HTH-like domain; Region: HTH_21; pfam13276 397945006238 Integrase core domain; Region: rve; cl01316 397945006239 Integrase core domain; Region: rve_3; cl15866 397945006240 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 397945006241 catalytic residues [active] 397945006242 catalytic nucleophile [active] 397945006243 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945006244 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945006245 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945006246 Synaptic Site I dimer interface [polypeptide binding]; other site 397945006247 DNA binding site [nucleotide binding] 397945006248 putative transposase OrfB; Reviewed; Region: PHA02517 397945006249 HTH-like domain; Region: HTH_21; pfam13276 397945006250 Integrase core domain; Region: rve; cl01316 397945006251 Integrase core domain; Region: rve_3; cl15866 397945006252 Helix-turn-helix domains; Region: HTH; cl00088 397945006253 putative assembly protein; Region: PHA00350 397945006254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945006255 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 397945006256 putative major coat protein; Region: PHA00979 397945006257 Replication initiation factor; Region: Rep_trans; pfam02486 397945006258 CsbD-like; Region: CsbD; cl15799 397945006259 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 397945006260 dinuclear metal binding motif [ion binding]; other site 397945006261 CheB methylesterase; Region: CheB_methylest; pfam01339 397945006262 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945006263 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 397945006264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945006265 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 397945006266 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 397945006267 PAS domain; Region: PAS_10; pfam13596 397945006268 PAS domain S-box; Region: sensory_box; TIGR00229 397945006269 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 397945006270 putative active site [active] 397945006271 heme pocket [chemical binding]; other site 397945006272 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945006273 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 397945006274 putative active site [active] 397945006275 heme pocket [chemical binding]; other site 397945006276 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945006277 dimer interface [polypeptide binding]; other site 397945006278 phosphorylation site [posttranslational modification] 397945006279 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 397945006280 ATP binding site [chemical binding]; other site 397945006281 Mg2+ binding site [ion binding]; other site 397945006282 G-X-G motif; other site 397945006283 Response regulator receiver domain; Region: Response_reg; pfam00072 397945006284 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 397945006285 active site 397945006286 phosphorylation site [posttranslational modification] 397945006287 intermolecular recognition site; other site 397945006288 dimerization interface [polypeptide binding]; other site 397945006289 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 397945006290 RNA binding surface [nucleotide binding]; other site 397945006291 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 397945006292 Transposase domain (DUF772); Region: DUF772; cl15789 397945006293 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945006294 Transposase domain (DUF772); Region: DUF772; cl15789 397945006295 Transposase domain (DUF772); Region: DUF772; cl15789 397945006296 Helix-turn-helix domains; Region: HTH; cl00088 397945006297 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945006298 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945006299 dimerization interface [polypeptide binding]; other site 397945006300 substrate binding pocket [chemical binding]; other site 397945006301 Helix-turn-helix domains; Region: HTH; cl00088 397945006302 Integrase core domain; Region: rve; cl01316 397945006303 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945006304 Integrase core domain; Region: rve_3; cl15866 397945006305 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 397945006306 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 397945006307 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945006308 catalytic residue [active] 397945006309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945006310 NMT1-like family; Region: NMT1_2; cl15260 397945006311 amidase; Provisional; Region: PRK07486 397945006312 Amidase; Region: Amidase; cl11426 397945006313 FAD dependent oxidoreductase; Region: DAO; pfam01266 397945006314 Putative motility protein; Region: YjfB_motility; pfam14070 397945006315 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 397945006316 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945006317 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 397945006318 Uncharacterized conserved protein [Function unknown]; Region: COG1739 397945006319 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 397945006320 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 397945006321 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 397945006322 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945006323 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006324 dimer interface [polypeptide binding]; other site 397945006325 putative CheW interface [polypeptide binding]; other site 397945006326 hypothetical protein; Provisional; Region: PRK01254 397945006327 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 397945006328 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 397945006329 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 397945006330 formyl-coenzyme A transferase; Provisional; Region: PRK05398 397945006331 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945006332 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 397945006333 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 397945006334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945006335 homodimer interface [polypeptide binding]; other site 397945006336 catalytic residue [active] 397945006337 excinuclease ABC subunit B; Provisional; Region: PRK05298 397945006338 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 397945006339 ATP binding site [chemical binding]; other site 397945006340 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 397945006341 nucleotide binding region [chemical binding]; other site 397945006342 ATP-binding site [chemical binding]; other site 397945006343 Ultra-violet resistance protein B; Region: UvrB; pfam12344 397945006344 UvrB/uvrC motif; Region: UVR; pfam02151 397945006345 Helix-turn-helix domains; Region: HTH; cl00088 397945006346 Rrf2 family protein; Region: rrf2_super; TIGR00738 397945006347 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 397945006348 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 397945006349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945006350 catalytic residue [active] 397945006351 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 397945006352 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 397945006353 trimerization site [polypeptide binding]; other site 397945006354 active site 397945006355 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 397945006356 co-chaperone HscB; Provisional; Region: hscB; PRK03578 397945006357 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 397945006358 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 397945006359 chaperone protein HscA; Provisional; Region: hscA; PRK05183 397945006360 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 397945006361 catalytic loop [active] 397945006362 iron binding site [ion binding]; other site 397945006363 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 397945006364 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 397945006365 active site 397945006366 substrate binding site [chemical binding]; other site 397945006367 catalytic site [active] 397945006368 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 397945006369 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 397945006370 Predicted dehydrogenase [General function prediction only]; Region: COG0579 397945006371 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 397945006372 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 397945006373 quinone interaction residues [chemical binding]; other site 397945006374 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 397945006375 active site 397945006376 catalytic residues [active] 397945006377 FMN binding site [chemical binding]; other site 397945006378 substrate binding site [chemical binding]; other site 397945006379 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 397945006380 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945006381 active site 397945006382 dimer interface [polypeptide binding]; other site 397945006383 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 397945006384 catalytic residues [active] 397945006385 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 397945006386 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 397945006387 active site 397945006388 Zn binding site [ion binding]; other site 397945006389 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 397945006390 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 397945006391 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 397945006392 homodimer interface [polypeptide binding]; other site 397945006393 NADP binding site [chemical binding]; other site 397945006394 substrate binding site [chemical binding]; other site 397945006395 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 397945006396 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 397945006397 active site 397945006398 phosphorylation site [posttranslational modification] 397945006399 intermolecular recognition site; other site 397945006400 dimerization interface [polypeptide binding]; other site 397945006401 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945006402 DNA binding residues [nucleotide binding] 397945006403 dimerization interface [polypeptide binding]; other site 397945006404 PAS domain S-box; Region: sensory_box; TIGR00229 397945006405 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 397945006406 putative active site [active] 397945006407 heme pocket [chemical binding]; other site 397945006408 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945006409 dimer interface [polypeptide binding]; other site 397945006410 phosphorylation site [posttranslational modification] 397945006411 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 397945006412 ATP binding site [chemical binding]; other site 397945006413 Mg2+ binding site [ion binding]; other site 397945006414 G-X-G motif; other site 397945006415 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 397945006416 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 397945006417 dimer interface [polypeptide binding]; other site 397945006418 TPP-binding site [chemical binding]; other site 397945006419 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase; Region: SucB_Actino; TIGR02927 397945006420 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 397945006421 E3 interaction surface; other site 397945006422 lipoyl attachment site [posttranslational modification]; other site 397945006423 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 397945006424 E3 interaction surface; other site 397945006425 lipoyl attachment site [posttranslational modification]; other site 397945006426 e3 binding domain; Region: E3_binding; pfam02817 397945006427 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 397945006428 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 397945006429 E3 interaction surface; other site 397945006430 lipoyl attachment site [posttranslational modification]; other site 397945006431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945006432 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 397945006433 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945006434 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 397945006435 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 397945006436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945006437 NMT1-like family; Region: NMT1_2; cl15260 397945006438 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 397945006439 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; cl15754 397945006440 Transglycosylase; Region: Transgly; cl07896 397945006441 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 397945006442 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945006443 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945006444 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945006445 substrate binding pocket [chemical binding]; other site 397945006446 membrane-bound complex binding site; other site 397945006447 hinge residues; other site 397945006448 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 397945006449 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945006450 active site 397945006451 ATP binding site [chemical binding]; other site 397945006452 substrate binding site [chemical binding]; other site 397945006453 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 397945006454 nudix motif; other site 397945006455 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945006456 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 397945006457 maleylacetoacetate isomerase; Region: maiA; TIGR01262 397945006458 C-terminal domain interface [polypeptide binding]; other site 397945006459 GSH binding site (G-site) [chemical binding]; other site 397945006460 putative dimer interface [polypeptide binding]; other site 397945006461 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 397945006462 dimer interface [polypeptide binding]; other site 397945006463 N-terminal domain interface [polypeptide binding]; other site 397945006464 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 397945006465 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 397945006466 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 397945006467 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 397945006468 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 397945006469 putative acyltransferase; Provisional; Region: PRK05790 397945006470 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 397945006471 dimer interface [polypeptide binding]; other site 397945006472 active site 397945006473 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 397945006474 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 397945006475 NAD(P) binding site [chemical binding]; other site 397945006476 homotetramer interface [polypeptide binding]; other site 397945006477 homodimer interface [polypeptide binding]; other site 397945006478 active site 397945006479 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 397945006480 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945006481 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945006482 ABC transporter; Region: ABC_tran_2; pfam12848 397945006483 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945006484 HemK family putative methylases; Region: hemK_fam; TIGR00536 397945006485 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 397945006486 S-adenosylmethionine binding site [chemical binding]; other site 397945006487 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 397945006488 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 397945006489 metal binding site [ion binding]; metal-binding site 397945006490 dimer interface [polypeptide binding]; other site 397945006491 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 397945006492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945006493 Walker A motif; other site 397945006494 ATP binding site [chemical binding]; other site 397945006495 Walker B motif; other site 397945006496 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 397945006497 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 397945006498 active site 397945006499 substrate binding site [chemical binding]; other site 397945006500 trimer interface [polypeptide binding]; other site 397945006501 CoA binding site [chemical binding]; other site 397945006502 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 397945006503 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 397945006504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945006505 homodimer interface [polypeptide binding]; other site 397945006506 catalytic residue [active] 397945006507 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945006508 dimerization interface [polypeptide binding]; other site 397945006509 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945006510 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006511 dimer interface [polypeptide binding]; other site 397945006512 putative CheW interface [polypeptide binding]; other site 397945006513 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 397945006514 ferredoxin; Provisional; Region: PRK06991 397945006515 Putative Fe-S cluster; Region: FeS; pfam04060 397945006516 4Fe-4S binding domain; Region: Fer4; cl02805 397945006517 4Fe-4S binding domain; Region: Fer4; cl02805 397945006518 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 397945006519 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 397945006520 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 397945006521 synthetase active site [active] 397945006522 NTP binding site [chemical binding]; other site 397945006523 metal binding site [ion binding]; metal-binding site 397945006524 CHASE domain; Region: CHASE; cl01369 397945006525 PAS fold; Region: PAS_4; pfam08448 397945006526 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 397945006527 putative active site [active] 397945006528 heme pocket [chemical binding]; other site 397945006529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945006530 metal binding site [ion binding]; metal-binding site 397945006531 active site 397945006532 I-site; other site 397945006533 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 397945006534 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 397945006535 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 397945006536 FMN binding site [chemical binding]; other site 397945006537 active site 397945006538 catalytic residues [active] 397945006539 substrate binding site [chemical binding]; other site 397945006540 Transposase domain (DUF772); Region: DUF772; cl15789 397945006541 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 397945006542 Transposase domain (DUF772); Region: DUF772; cl15789 397945006543 CHASE3 domain; Region: CHASE3; cl05000 397945006544 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945006545 dimerization interface [polypeptide binding]; other site 397945006546 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006547 dimer interface [polypeptide binding]; other site 397945006548 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 397945006549 putative CheW interface [polypeptide binding]; other site 397945006550 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945006551 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 397945006552 active site 397945006553 phosphorylation site [posttranslational modification] 397945006554 intermolecular recognition site; other site 397945006555 dimerization interface [polypeptide binding]; other site 397945006556 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945006557 DNA binding residues [nucleotide binding] 397945006558 dimerization interface [polypeptide binding]; other site 397945006559 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 397945006560 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945006561 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945006562 Outer membrane efflux protein; Region: OEP; pfam02321 397945006563 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945006564 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 397945006565 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945006566 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 397945006567 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 397945006568 PAS domain; Region: PAS_9; pfam13426 397945006569 putative active site [active] 397945006570 heme pocket [chemical binding]; other site 397945006571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945006572 metal binding site [ion binding]; metal-binding site 397945006573 active site 397945006574 I-site; other site 397945006575 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945006576 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 397945006577 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 397945006578 PAS domain S-box; Region: sensory_box; TIGR00229 397945006579 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945006580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945006581 DNA-binding site [nucleotide binding]; DNA binding site 397945006582 FCD domain; Region: FCD; cl11656 397945006583 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 397945006584 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 contain...; Region: MM_CoA_mutase_alpha_like; cd03679 397945006585 active site 397945006586 substrate binding site [chemical binding]; other site 397945006587 coenzyme B12 binding site [chemical binding]; other site 397945006588 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 atom...; Region: MM_CoA_mut_B12_BD; cd02071 397945006589 B12 binding site [chemical binding]; other site 397945006590 cobalt ligand [ion binding]; other site 397945006591 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945006592 Coenzyme A binding pocket [chemical binding]; other site 397945006593 membrane ATPase/protein kinase; Provisional; Region: PRK09435 397945006594 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 397945006595 Walker A; other site 397945006596 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 397945006597 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 397945006598 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 397945006599 LabA_like proteins; Region: LabA_like; cd06167 397945006600 putative metal binding site [ion binding]; other site 397945006601 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 397945006602 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945006603 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945006604 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 397945006605 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 397945006606 carboxyltransferase (CT) interaction site; other site 397945006607 biotinylation site [posttranslational modification]; other site 397945006608 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 397945006609 dimer interface [polypeptide binding]; other site 397945006610 substrate binding site [chemical binding]; other site 397945006611 metal binding site [ion binding]; metal-binding site 397945006612 biotin synthase; Region: bioB; TIGR00433 397945006613 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 397945006614 FeS/SAM binding site; other site 397945006615 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 397945006616 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 397945006617 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 397945006618 active site 397945006619 DNA binding site [nucleotide binding] 397945006620 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 397945006621 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 397945006622 DNA binding site [nucleotide binding] 397945006623 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 397945006624 nucleotide binding site [chemical binding]; other site 397945006625 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 397945006626 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 397945006627 putative DNA binding site [nucleotide binding]; other site 397945006628 putative homodimer interface [polypeptide binding]; other site 397945006629 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 397945006630 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 397945006631 dimerization interface [polypeptide binding]; other site 397945006632 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945006633 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945006634 dimer interface [polypeptide binding]; other site 397945006635 phosphorylation site [posttranslational modification] 397945006636 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 397945006637 ATP binding site [chemical binding]; other site 397945006638 Mg2+ binding site [ion binding]; other site 397945006639 G-X-G motif; other site 397945006640 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945006641 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 397945006642 active site 397945006643 phosphorylation site [posttranslational modification] 397945006644 intermolecular recognition site; other site 397945006645 dimerization interface [polypeptide binding]; other site 397945006646 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945006647 DNA binding site [nucleotide binding] 397945006648 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 397945006649 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945006650 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 397945006651 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 397945006652 Transposase domain (DUF772); Region: DUF772; cl15789 397945006653 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945006654 Transposase domain (DUF772); Region: DUF772; cl15789 397945006655 Transposase domain (DUF772); Region: DUF772; cl15789 397945006656 Low molecular weight phosphatase family; Region: LMWPc; cd00115 397945006657 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 397945006658 active site 397945006659 transcriptional regulator; Provisional; Region: PRK10632 397945006660 Helix-turn-helix domains; Region: HTH; cl00088 397945006661 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 397945006662 putative effector binding pocket; other site 397945006663 dimerization interface [polypeptide binding]; other site 397945006664 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 397945006665 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 397945006666 histidine kinase; Provisional; Region: PRK13557 397945006667 putative active site [active] 397945006668 heme pocket [chemical binding]; other site 397945006669 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 397945006670 ATP binding site [chemical binding]; other site 397945006671 Mg2+ binding site [ion binding]; other site 397945006672 G-X-G motif; other site 397945006673 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 397945006674 active site 397945006675 phosphorylation site [posttranslational modification] 397945006676 intermolecular recognition site; other site 397945006677 dimerization interface [polypeptide binding]; other site 397945006678 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 397945006679 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 397945006680 Walker A/P-loop; other site 397945006681 ATP binding site [chemical binding]; other site 397945006682 Q-loop/lid; other site 397945006683 ABC transporter signature motif; other site 397945006684 Walker B; other site 397945006685 D-loop; other site 397945006686 H-loop/switch region; other site 397945006687 NIL domain; Region: NIL; cl09633 397945006688 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945006689 dimer interface [polypeptide binding]; other site 397945006690 conserved gate region; other site 397945006691 ABC-ATPase subunit interface; other site 397945006692 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 397945006693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945006694 dimer interface [polypeptide binding]; other site 397945006695 putative CheW interface [polypeptide binding]; other site 397945006696 NMT1-like family; Region: NMT1_2; cl15260 397945006697 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945006698 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945006699 LysR family transcriptional regulator; Provisional; Region: PRK14997 397945006700 Helix-turn-helix domains; Region: HTH; cl00088 397945006701 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 397945006702 putative effector binding pocket; other site 397945006703 putative dimerization interface [polypeptide binding]; other site 397945006704 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 397945006705 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 397945006706 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 397945006707 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945006708 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 397945006709 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945006710 dimer interface [polypeptide binding]; other site 397945006711 conserved gate region; other site 397945006712 putative PBP binding loops; other site 397945006713 ABC-ATPase subunit interface; other site 397945006714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945006715 dimer interface [polypeptide binding]; other site 397945006716 conserved gate region; other site 397945006717 putative PBP binding loops; other site 397945006718 ABC-ATPase subunit interface; other site 397945006719 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 397945006720 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 397945006721 Walker A/P-loop; other site 397945006722 ATP binding site [chemical binding]; other site 397945006723 Q-loop/lid; other site 397945006724 ABC transporter signature motif; other site 397945006725 Walker B; other site 397945006726 D-loop; other site 397945006727 H-loop/switch region; other site 397945006728 TOBE-like domain; Region: TOBE_3; pfam12857 397945006729 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 397945006730 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 397945006731 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 397945006732 active site residue [active] 397945006733 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945006734 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 397945006735 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 397945006736 putative N-terminal domain interface [polypeptide binding]; other site 397945006737 putative dimer interface [polypeptide binding]; other site 397945006738 putative substrate binding pocket (H-site) [chemical binding]; other site 397945006739 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945006740 Helix-turn-helix domains; Region: HTH; cl00088 397945006741 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 397945006742 dimerization interface [polypeptide binding]; other site 397945006743 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945006744 N-acetylglutamate synthase; Validated; Region: PRK05279 397945006745 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 397945006746 putative feedback inhibition sensing region; other site 397945006747 putative nucleotide binding site [chemical binding]; other site 397945006748 putative substrate binding site [chemical binding]; other site 397945006749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945006750 Coenzyme A binding pocket [chemical binding]; other site 397945006751 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945006752 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945006753 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 397945006754 ATP binding site [chemical binding]; other site 397945006755 putative Mg++ binding site [ion binding]; other site 397945006756 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 397945006757 nucleotide binding region [chemical binding]; other site 397945006758 ATP-binding site [chemical binding]; other site 397945006759 Helicase associated domain (HA2); Region: HA2; cl04503 397945006760 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 397945006761 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 397945006762 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 397945006763 LexA repressor; Validated; Region: PRK00215 397945006764 Helix-turn-helix domains; Region: HTH; cl00088 397945006765 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945006766 Catalytic site [active] 397945006767 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 397945006768 active site 397945006769 homodimer interface [polypeptide binding]; other site 397945006770 homotetramer interface [polypeptide binding]; other site 397945006771 Helix-turn-helix domains; Region: HTH; cl00088 397945006772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945006773 Integrase core domain; Region: rve; cl01316 397945006774 Integrase core domain; Region: rve_3; cl15866 397945006775 adenylate kinase; Reviewed; Region: adk; PRK00279 397945006776 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 397945006777 AMP-binding site [chemical binding]; other site 397945006778 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 397945006779 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 397945006780 Ligand binding site; other site 397945006781 oligomer interface; other site 397945006782 Trm112p-like protein; Region: Trm112p; cl01066 397945006783 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 397945006784 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 397945006785 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 397945006786 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 397945006787 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 397945006788 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 397945006789 generic binding surface II; other site 397945006790 generic binding surface I; other site 397945006791 superoxide dismutase; Provisional; Region: PRK10543 397945006792 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 397945006793 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 397945006794 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 397945006795 isocitrate dehydrogenase; Validated; Region: PRK07362 397945006796 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 397945006797 Helix-turn-helix domains; Region: HTH; cl00088 397945006798 LysR family transcriptional regulator; Provisional; Region: PRK14997 397945006799 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 397945006800 putative effector binding pocket; other site 397945006801 dimerization interface [polypeptide binding]; other site 397945006802 glutathionine S-transferase; Provisional; Region: PRK10542 397945006803 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 397945006804 C-terminal domain interface [polypeptide binding]; other site 397945006805 GSH binding site (G-site) [chemical binding]; other site 397945006806 dimer interface [polypeptide binding]; other site 397945006807 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945006808 dimer interface [polypeptide binding]; other site 397945006809 N-terminal domain interface [polypeptide binding]; other site 397945006810 substrate binding pocket (H-site) [chemical binding]; other site 397945006811 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 397945006812 active site 1 [active] 397945006813 dimer interface [polypeptide binding]; other site 397945006814 hexamer interface [polypeptide binding]; other site 397945006815 active site 2 [active] 397945006816 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 397945006817 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945006818 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 397945006819 putative substrate translocation pore; other site 397945006820 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 397945006821 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 397945006822 DNA binding residues [nucleotide binding] 397945006823 putative dimer interface [polypeptide binding]; other site 397945006824 putative metal binding residues [ion binding]; other site 397945006825 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 397945006826 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 397945006827 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 397945006828 active site 397945006829 catalytic triad [active] 397945006830 Putative zinc-finger; Region: zf-HC2; cl15806 397945006831 RNA polymerase sigma factor; Provisional; Region: PRK12515 397945006832 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945006833 DNA binding residues [nucleotide binding] 397945006834 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 397945006835 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 397945006836 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 397945006837 putative active site [active] 397945006838 catalytic residue [active] 397945006839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945006840 NMT1-like family; Region: NMT1_2; cl15260 397945006841 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 397945006842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945006843 DNA-binding site [nucleotide binding]; DNA binding site 397945006844 FCD domain; Region: FCD; cl11656 397945006845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945006846 NAD(P) binding site [chemical binding]; other site 397945006847 active site 397945006848 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 397945006849 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945006850 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945006851 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945006852 DctM-like transporters; Region: DctM; pfam06808 397945006853 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945006854 galactarate dehydratase; Region: galactar-dH20; TIGR03248 397945006855 SAF domain; Region: SAF; cl00555 397945006856 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 397945006857 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 397945006858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945006859 NMT1-like family; Region: NMT1_2; cl15260 397945006860 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945006861 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 397945006862 N-terminal plug; other site 397945006863 ligand-binding site [chemical binding]; other site 397945006864 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 397945006865 E-class dimer interface [polypeptide binding]; other site 397945006866 P-class dimer interface [polypeptide binding]; other site 397945006867 active site 397945006868 Cu2+ binding site [ion binding]; other site 397945006869 Zn2+ binding site [ion binding]; other site 397945006870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945006871 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 397945006872 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945006873 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945006874 active site 397945006875 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 397945006876 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 397945006877 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945006878 tetrameric interface [polypeptide binding]; other site 397945006879 NAD binding site [chemical binding]; other site 397945006880 catalytic residues [active] 397945006881 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945006882 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945006883 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945006884 Helix-turn-helix domains; Region: HTH; cl00088 397945006885 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 397945006886 dimerization interface [polypeptide binding]; other site 397945006887 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945006888 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 397945006889 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 to...; Region: EFh; cd00051 397945006890 Ca2+ binding site [ion binding]; other site 397945006891 EF-hand domain pair; Region: EF_hand_5; pfam13499 397945006892 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 to...; Region: EFh; cd00051 397945006893 Ca2+ binding site [ion binding]; other site 397945006894 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 397945006895 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 397945006896 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 397945006897 catalytic site [active] 397945006898 subunit interface [polypeptide binding]; other site 397945006899 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945006900 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 397945006901 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945006902 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 397945006903 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945006904 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945006905 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 397945006906 IMP binding site; other site 397945006907 dimer interface [polypeptide binding]; other site 397945006908 interdomain contacts; other site 397945006909 partial ornithine binding site; other site 397945006910 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 397945006911 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 397945006912 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945006913 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 397945006914 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 397945006915 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; cl15754 397945006916 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 397945006917 FtsH Extracellular; Region: FtsH_ext; pfam06480 397945006918 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 397945006919 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945006920 Walker A motif; other site 397945006921 ATP binding site [chemical binding]; other site 397945006922 Walker B motif; other site 397945006923 arginine finger; other site 397945006924 Peptidase family M41; Region: Peptidase_M41; pfam01434 397945006925 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 397945006926 dihydropteroate synthase; Region: DHPS; TIGR01496 397945006927 substrate binding pocket [chemical binding]; other site 397945006928 dimer interface [polypeptide binding]; other site 397945006929 inhibitor binding site; inhibition site 397945006930 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 397945006931 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 397945006932 active site 397945006933 substrate binding site [chemical binding]; other site 397945006934 metal binding site [ion binding]; metal-binding site 397945006935 PAS domain S-box; Region: sensory_box; TIGR00229 397945006936 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 397945006937 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 397945006938 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 397945006939 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 397945006940 PAS domain; Region: PAS_9; pfam13426 397945006941 putative active site [active] 397945006942 heme pocket [chemical binding]; other site 397945006943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945006944 metal binding site [ion binding]; metal-binding site 397945006945 active site 397945006946 I-site; other site 397945006947 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 397945006948 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945006949 polyphosphate kinase; Provisional; Region: PRK05443 397945006950 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 397945006951 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 397945006952 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945006953 putative active site [active] 397945006954 catalytic site [active] 397945006955 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 397945006956 putative domain interface [polypeptide binding]; other site 397945006957 putative active site [active] 397945006958 catalytic site [active] 397945006959 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 397945006960 catalytic core [active] 397945006961 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 397945006962 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 397945006963 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 397945006964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945006965 dimer interface [polypeptide binding]; other site 397945006966 conserved gate region; other site 397945006967 putative PBP binding loops; other site 397945006968 ABC-ATPase subunit interface; other site 397945006969 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 397945006970 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945006971 dimer interface [polypeptide binding]; other site 397945006972 conserved gate region; other site 397945006973 putative PBP binding loops; other site 397945006974 ABC-ATPase subunit interface; other site 397945006975 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 397945006976 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 397945006977 Walker A/P-loop; other site 397945006978 ATP binding site [chemical binding]; other site 397945006979 Q-loop/lid; other site 397945006980 ABC transporter signature motif; other site 397945006981 Walker B; other site 397945006982 D-loop; other site 397945006983 H-loop/switch region; other site 397945006984 transcriptional regulator PhoU; Provisional; Region: PRK11115 397945006985 PhoU domain; Region: PhoU; pfam01895 397945006986 PhoU domain; Region: PhoU; pfam01895 397945006987 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 397945006988 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 397945006989 active site 397945006990 phosphorylation site [posttranslational modification] 397945006991 intermolecular recognition site; other site 397945006992 dimerization interface [polypeptide binding]; other site 397945006993 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945006994 DNA binding site [nucleotide binding] 397945006995 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 397945006996 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945006997 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 397945006998 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945006999 dimer interface [polypeptide binding]; other site 397945007000 phosphorylation site [posttranslational modification] 397945007001 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 397945007002 ATP binding site [chemical binding]; other site 397945007003 Mg2+ binding site [ion binding]; other site 397945007004 G-X-G motif; other site 397945007005 putative efflux protein, MATE family; Region: matE; TIGR00797 397945007006 MatE; Region: MatE; cl10513 397945007007 MatE; Region: MatE; cl10513 397945007008 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 397945007009 exonuclease subunit SbcD; Provisional; Region: PRK10966 397945007010 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 397945007011 active site 397945007012 metal binding site [ion binding]; metal-binding site 397945007013 DNA binding site [nucleotide binding] 397945007014 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 397945007015 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007016 Walker A/P-loop; other site 397945007017 ATP binding site [chemical binding]; other site 397945007018 Q-loop/lid; other site 397945007019 exonuclease subunit SbcC; Provisional; Region: PRK10246 397945007020 exonuclease subunit SbcC; Provisional; Region: PRK10246 397945007021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007022 Walker B; other site 397945007023 D-loop; other site 397945007024 H-loop/switch region; other site 397945007025 transcription termination factor Rho; Provisional; Region: rho; PRK09376 397945007026 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 397945007027 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 397945007028 RNA binding site [nucleotide binding]; other site 397945007029 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 397945007030 multimer interface [polypeptide binding]; other site 397945007031 Walker A motif; other site 397945007032 ATP binding site [chemical binding]; other site 397945007033 Walker B motif; other site 397945007034 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 397945007035 catalytic residues [active] 397945007036 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 397945007037 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 397945007038 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 397945007039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007040 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 397945007041 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 397945007042 HI0933-like protein; Region: HI0933_like; pfam03486 397945007043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945007044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007045 Cache domain; Region: Cache_2; cl07034 397945007046 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945007047 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945007048 dimer interface [polypeptide binding]; other site 397945007049 putative CheW interface [polypeptide binding]; other site 397945007050 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 397945007051 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945007052 Walker A motif; other site 397945007053 ATP binding site [chemical binding]; other site 397945007054 Walker B motif; other site 397945007055 arginine finger; other site 397945007056 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 397945007057 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 397945007058 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 397945007059 recombination protein RecR; Reviewed; Region: recR; PRK00076 397945007060 RecR protein; Region: RecR; pfam02132 397945007061 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 397945007062 putative active site [active] 397945007063 putative metal-binding site [ion binding]; other site 397945007064 tetramer interface [polypeptide binding]; other site 397945007065 MAPEG family; Region: MAPEG; cl09190 397945007066 NMT1-like family; Region: NMT1_2; cl15260 397945007067 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 397945007068 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 397945007069 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945007070 catalytic residue [active] 397945007071 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 397945007072 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945007073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007074 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 397945007075 RNA/DNA hybrid binding site [nucleotide binding]; other site 397945007076 active site 397945007077 Helix-turn-helix domains; Region: HTH; cl00088 397945007078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945007079 Integrase core domain; Region: rve; cl01316 397945007080 Integrase core domain; Region: rve_3; cl15866 397945007081 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 397945007082 catalytic residues [active] 397945007083 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 397945007084 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 397945007085 dimer interface [polypeptide binding]; other site 397945007086 putative functional site; other site 397945007087 putative MPT binding site; other site 397945007088 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 397945007089 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945007090 Coenzyme A binding pocket [chemical binding]; other site 397945007091 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 397945007092 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 397945007093 GTP binding site; other site 397945007094 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 397945007095 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 397945007096 FeS/SAM binding site; other site 397945007097 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 397945007098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007099 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 397945007100 NAD(P) binding site [chemical binding]; other site 397945007101 active site 397945007102 superoxide dismutase; Provisional; Region: PRK10925 397945007103 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 397945007104 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 397945007105 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 397945007106 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945007107 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 397945007108 NAD(P) binding site [chemical binding]; other site 397945007109 catalytic residues [active] 397945007110 catalytic residues [active] 397945007111 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 397945007112 ligand binding site [chemical binding]; other site 397945007113 flexible hinge region; other site 397945007114 Helix-turn-helix domains; Region: HTH; cl00088 397945007115 Protein of unknown function (DUF962); Region: DUF962; cl01879 397945007116 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 397945007117 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 397945007118 putative metal binding site [ion binding]; other site 397945007119 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 397945007120 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 397945007121 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 397945007122 dimer interface [polypeptide binding]; other site 397945007123 substrate binding site [chemical binding]; other site 397945007124 metal binding sites [ion binding]; metal-binding site 397945007125 Cell division inhibitor SulA; Region: SulA; cl01880 397945007126 Y-family of DNA polymerases; Region: PolY; cl12025 397945007127 DNA binding site [nucleotide binding] 397945007128 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 397945007129 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 397945007130 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 397945007131 generic binding surface II; other site 397945007132 generic binding surface I; other site 397945007133 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 397945007134 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 397945007135 AsmA-like C-terminal region; Region: AsmA_2; cl15864 397945007136 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 397945007137 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 397945007138 probable active site [active] 397945007139 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 397945007140 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 397945007141 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945007142 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945007143 P-loop; other site 397945007144 Magnesium ion binding site [ion binding]; other site 397945007145 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 397945007146 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 397945007147 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 397945007148 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional; Region: FHY3; PLN03097 397945007149 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 397945007150 dimer interface [polypeptide binding]; other site 397945007151 ssDNA binding site [nucleotide binding]; other site 397945007152 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945007153 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 397945007154 ATP binding site [chemical binding]; other site 397945007155 putative Mg++ binding site [ion binding]; other site 397945007156 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 397945007157 nucleotide binding region [chemical binding]; other site 397945007158 ATP-binding site [chemical binding]; other site 397945007159 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 397945007160 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 397945007161 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007162 DEAD-like helicases superfamily; Region: DEXDc; smart00487 397945007163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007164 multiple promoter invertase; Provisional; Region: mpi; PRK13413 397945007165 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 397945007166 catalytic residues [active] 397945007167 catalytic nucleophile [active] 397945007168 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945007169 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945007170 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945007171 Synaptic Site I dimer interface [polypeptide binding]; other site 397945007172 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 397945007173 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 397945007174 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 397945007175 hypothetical protein; Provisional; Region: PRK10396 397945007176 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 397945007177 SEC-C motif; Region: SEC-C; pfam02810 397945007178 Transposase domain (DUF772); Region: DUF772; cl15789 397945007179 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945007180 Transposase domain (DUF772); Region: DUF772; cl15789 397945007181 Transposase domain (DUF772); Region: DUF772; cl15789 397945007182 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945007183 putative transposase OrfB; Reviewed; Region: PHA02517 397945007184 HTH-like domain; Region: HTH_21; pfam13276 397945007185 Integrase core domain; Region: rve; cl01316 397945007186 Integrase core domain; Region: rve_3; cl15866 397945007187 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 397945007188 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007189 Walker A motif; other site 397945007190 ATP binding site [chemical binding]; other site 397945007191 Walker B motif; other site 397945007192 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007193 ATP binding site [chemical binding]; other site 397945007194 Walker B motif; other site 397945007195 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945007196 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945007197 Type II/IV secretion system protein; Region: T2SE; pfam00437 397945007198 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007199 Walker A motif; other site 397945007200 ATP binding site [chemical binding]; other site 397945007201 Walker B motif; other site 397945007202 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 397945007203 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945007204 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 397945007205 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 397945007206 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945007207 catalytic residue [active] 397945007208 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 397945007209 dimerization domain [polypeptide binding]; other site 397945007210 dimer interface [polypeptide binding]; other site 397945007211 catalytic residues [active] 397945007212 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 397945007213 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 397945007214 DNA binding site [nucleotide binding] 397945007215 Int/Topo IB signature motif; other site 397945007216 active site 397945007217 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 397945007218 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 397945007219 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 397945007220 generic binding surface I; other site 397945007221 generic binding surface II; other site 397945007222 DNA Polymerase Y-family; Region: PolY_like; cd03468 397945007223 DNA binding site [nucleotide binding] 397945007224 Cell division inhibitor SulA; Region: SulA; cl01880 397945007225 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945007226 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945007227 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945007228 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945007229 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 397945007230 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 397945007231 RHS Repeat; Region: RHS_repeat; cl11982 397945007232 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945007233 RHS Repeat; Region: RHS_repeat; cl11982 397945007234 RHS Repeat; Region: RHS_repeat; cl11982 397945007235 RHS Repeat; Region: RHS_repeat; cl11982 397945007236 RHS Repeat; Region: RHS_repeat; cl11982 397945007237 RHS Repeat; Region: RHS_repeat; cl11982 397945007238 RHS Repeat; Region: RHS_repeat; cl11982 397945007239 RHS Repeat; Region: RHS_repeat; cl11982 397945007240 RHS Repeat; Region: RHS_repeat; cl11982 397945007241 RHS protein; Region: RHS; pfam03527 397945007242 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945007243 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 397945007244 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 397945007245 SprT homologues; Region: SprT; cl01182 397945007246 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945007247 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 397945007248 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 397945007249 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 397945007250 TraU protein; Region: TraU; cl06067 397945007251 TraU protein; Region: TraU; cl06067 397945007252 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 397945007253 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 397945007254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007255 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 397945007256 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 397945007257 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 397945007258 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 397945007259 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 397945007260 DNA polymerase I; Provisional; Region: PRK05755 397945007261 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 397945007262 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 397945007263 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 397945007264 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 397945007265 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 397945007266 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 397945007267 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 397945007268 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 397945007269 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 397945007270 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 397945007271 Putative helicase; Region: TraI_2; pfam07514 397945007272 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 397945007273 Helix-turn-helix domains; Region: HTH; cl00088 397945007274 Integrase core domain; Region: rve; cl01316 397945007275 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945007276 Integrase core domain; Region: rve_3; cl15866 397945007277 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 397945007278 methionine synthase; Provisional; Region: PRK01207 397945007279 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 397945007280 substrate binding site [chemical binding]; other site 397945007281 THF binding site; other site 397945007282 zinc-binding site [ion binding]; other site 397945007283 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 397945007284 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945007285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945007286 Helix-turn-helix domains; Region: HTH; cl00088 397945007287 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 397945007288 putative dimerization interface [polypeptide binding]; other site 397945007289 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 397945007290 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007291 Walker A/P-loop; other site 397945007292 ATP binding site [chemical binding]; other site 397945007293 Q-loop/lid; other site 397945007294 ABC transporter signature motif; other site 397945007295 Walker B; other site 397945007296 D-loop; other site 397945007297 H-loop/switch region; other site 397945007298 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 397945007299 active site 397945007300 Zn binding site [ion binding]; other site 397945007301 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 397945007302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007303 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 397945007304 Radical SAM superfamily; Region: Radical_SAM; pfam04055 397945007305 FeS/SAM binding site; other site 397945007306 classical (c) SDRs; Region: SDR_c; cd05233 397945007307 NAD(P) binding site [chemical binding]; other site 397945007308 active site 397945007309 Predicted membrane protein [Function unknown]; Region: COG1511 397945007310 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 397945007311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007312 NAD(P) binding site [chemical binding]; other site 397945007313 active site 397945007314 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945007315 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 397945007316 dimer interface [polypeptide binding]; other site 397945007317 active site 397945007318 metal binding site [ion binding]; metal-binding site 397945007319 glutathione binding site [chemical binding]; other site 397945007320 Entner-Doudoroff aldolase; Region: eda; TIGR01182 397945007321 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 397945007322 active site 397945007323 intersubunit interface [polypeptide binding]; other site 397945007324 catalytic residue [active] 397945007325 Dehydratase family; Region: ILVD_EDD; cl00340 397945007326 6-phosphogluconate dehydratase; Region: edd; TIGR01196 397945007327 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945007328 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945007329 DctM-like transporters; Region: DctM; pfam06808 397945007330 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945007331 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 397945007332 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 397945007333 ATP-binding site [chemical binding]; other site 397945007334 Gluconate-6-phosphate binding site [chemical binding]; other site 397945007335 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945007336 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945007337 DNA binding site [nucleotide binding] 397945007338 domain linker motif; other site 397945007339 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 397945007340 putative ligand binding site [chemical binding]; other site 397945007341 putative dimerization interface [polypeptide binding]; other site 397945007342 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 397945007343 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 397945007344 ligand binding site [chemical binding]; other site 397945007345 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 397945007346 putative active site pocket [active] 397945007347 dimerization interface [polypeptide binding]; other site 397945007348 putative catalytic residue [active] 397945007349 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 397945007350 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 397945007351 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 397945007352 Membrane transport protein; Region: Mem_trans; cl09117 397945007353 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 397945007354 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945007355 NAD binding site [chemical binding]; other site 397945007356 catalytic residues [active] 397945007357 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 397945007358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007359 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 397945007360 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 397945007361 N-terminal plug; other site 397945007362 ligand-binding site [chemical binding]; other site 397945007363 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 397945007364 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 397945007365 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945007366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007367 Walker A/P-loop; other site 397945007368 ATP binding site [chemical binding]; other site 397945007369 Q-loop/lid; other site 397945007370 ABC transporter signature motif; other site 397945007371 Walker B; other site 397945007372 D-loop; other site 397945007373 H-loop/switch region; other site 397945007374 Helix-turn-helix domains; Region: HTH; cl00088 397945007375 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 397945007376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945007377 Helix-turn-helix domains; Region: HTH; cl00088 397945007378 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 397945007379 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 397945007380 S-adenosylmethionine binding site [chemical binding]; other site 397945007381 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 397945007382 active site residue [active] 397945007383 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 397945007384 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 397945007385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007386 CoA-ligase; Region: Ligase_CoA; cl02894 397945007387 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945007388 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945007389 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945007390 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 397945007391 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 397945007392 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 397945007393 active site 397945007394 catalytic triad [active] 397945007395 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 397945007396 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 397945007397 active site 397945007398 substrate binding site [chemical binding]; other site 397945007399 metal binding site [ion binding]; metal-binding site 397945007400 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 397945007401 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 397945007402 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945007403 AlkA N-terminal domain; Region: AlkA_N; cl05528 397945007404 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 397945007405 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945007406 minor groove reading motif; other site 397945007407 helix-hairpin-helix signature motif; other site 397945007408 active site 397945007409 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 397945007410 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 397945007411 DNA binding site [nucleotide binding] 397945007412 active site 397945007413 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 397945007414 EamA-like transporter family; Region: EamA; cl01037 397945007415 EamA-like transporter family; Region: EamA; cl01037 397945007416 hypothetical protein; Provisional; Region: PRK13560 397945007417 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 397945007418 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 397945007419 putative active site [active] 397945007420 heme pocket [chemical binding]; other site 397945007421 putative diguanylate cyclase; Provisional; Region: PRK09776 397945007422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945007423 metal binding site [ion binding]; metal-binding site 397945007424 active site 397945007425 I-site; other site 397945007426 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 397945007427 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 397945007428 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 397945007429 AMP-binding enzyme; Region: AMP-binding; cl15778 397945007430 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945007431 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 397945007432 Isochorismatase family; Region: Isochorismatase; pfam00857 397945007433 catalytic triad [active] 397945007434 dimer interface [polypeptide binding]; other site 397945007435 conserved cis-peptide bond; other site 397945007436 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 397945007437 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 397945007438 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 397945007439 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 397945007440 NlpC/P60 family; Region: NLPC_P60; cl11438 397945007441 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 397945007442 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 397945007443 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 397945007444 ATP binding site [chemical binding]; other site 397945007445 putative Mg++ binding site [ion binding]; other site 397945007446 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 397945007447 nucleotide binding region [chemical binding]; other site 397945007448 ATP-binding site [chemical binding]; other site 397945007449 EVE domain; Region: EVE; cl00728 397945007450 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945007451 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 397945007452 substrate binding pocket [chemical binding]; other site 397945007453 membrane-bound complex binding site; other site 397945007454 hinge residues; other site 397945007455 PAAR motif; Region: PAAR_motif; cl15808 397945007456 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945007457 RHS Repeat; Region: RHS_repeat; cl11982 397945007458 RHS Repeat; Region: RHS_repeat; cl11982 397945007459 RHS Repeat; Region: RHS_repeat; cl11982 397945007460 RHS Repeat; Region: RHS_repeat; cl11982 397945007461 RHS Repeat; Region: RHS_repeat; cl11982 397945007462 RHS protein; Region: RHS; pfam03527 397945007463 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945007464 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 397945007465 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945007466 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945007467 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945007468 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945007469 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945007470 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 397945007471 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 397945007472 nucleotide binding pocket [chemical binding]; other site 397945007473 K-X-D-G motif; other site 397945007474 catalytic site [active] 397945007475 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 397945007476 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 397945007477 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 397945007478 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 397945007479 Dimer interface [polypeptide binding]; other site 397945007480 BRCT sequence motif; other site 397945007481 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 397945007482 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 397945007483 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 397945007484 Walker A/P-loop; other site 397945007485 ATP binding site [chemical binding]; other site 397945007486 Q-loop/lid; other site 397945007487 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 397945007488 ABC transporter signature motif; other site 397945007489 Walker B; other site 397945007490 D-loop; other site 397945007491 H-loop/switch region; other site 397945007492 Lipase (class 3). 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...; Region: Lipase_3; cd00519 397945007493 active site flap/lid [active] 397945007494 nucleophilic elbow; other site 397945007495 catalytic triad [active] 397945007496 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 397945007497 CHASE domain; Region: CHASE; cl01369 397945007498 PAS domain S-box; Region: sensory_box; TIGR00229 397945007499 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 397945007500 putative active site [active] 397945007501 heme pocket [chemical binding]; other site 397945007502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945007503 metal binding site [ion binding]; metal-binding site 397945007504 active site 397945007505 I-site; other site 397945007506 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 397945007507 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 397945007508 transmembrane helices; other site 397945007509 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 397945007510 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 397945007511 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945007512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945007513 Walker A/P-loop; other site 397945007514 ATP binding site [chemical binding]; other site 397945007515 Q-loop/lid; other site 397945007516 ABC transporter signature motif; other site 397945007517 Walker B; other site 397945007518 D-loop; other site 397945007519 H-loop/switch region; other site 397945007520 maltose O-acetyltransferase; Provisional; Region: PRK10092 397945007521 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 397945007522 active site 397945007523 substrate binding site [chemical binding]; other site 397945007524 trimer interface [polypeptide binding]; other site 397945007525 CoA binding site [chemical binding]; other site 397945007526 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 397945007527 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 397945007528 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 397945007529 DNA binding residues [nucleotide binding] 397945007530 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 397945007531 IHF - DNA interface [nucleotide binding]; other site 397945007532 IHF dimer interface [polypeptide binding]; other site 397945007533 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 397945007534 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 397945007535 putative tRNA-binding site [nucleotide binding]; other site 397945007536 B3/4 domain; Region: B3_4; cl11458 397945007537 tRNA synthetase B5 domain; Region: B5; cl08394 397945007538 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 397945007539 dimer interface [polypeptide binding]; other site 397945007540 motif 1; other site 397945007541 motif 3; other site 397945007542 motif 2; other site 397945007543 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 397945007544 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 397945007545 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 397945007546 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 397945007547 dimer interface [polypeptide binding]; other site 397945007548 motif 1; other site 397945007549 active site 397945007550 motif 2; other site 397945007551 motif 3; other site 397945007552 ribosomal protein L20; Region: rpl20; CHL00068 397945007553 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 397945007554 23S rRNA binding site [nucleotide binding]; other site 397945007555 L21 binding site [polypeptide binding]; other site 397945007556 L13 binding site [polypeptide binding]; other site 397945007557 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 397945007558 translation initiation factor IF-3; Region: infC; TIGR00168 397945007559 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 397945007560 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 397945007561 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 397945007562 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 397945007563 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 397945007564 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 397945007565 active site 397945007566 dimer interface [polypeptide binding]; other site 397945007567 motif 1; other site 397945007568 motif 2; other site 397945007569 motif 3; other site 397945007570 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 397945007571 anticodon binding site; other site 397945007572 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 397945007573 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 397945007574 tetramer interface [polypeptide binding]; other site 397945007575 active site 397945007576 Mg2+/Mn2+ binding site [ion binding]; other site 397945007577 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 397945007578 putative active site pocket [active] 397945007579 dimerization interface [polypeptide binding]; other site 397945007580 putative catalytic residue [active] 397945007581 EamA-like transporter family; Region: EamA; cl01037 397945007582 EamA-like transporter family; Region: EamA; cl01037 397945007583 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945007584 Helix-turn-helix domains; Region: HTH; cl00088 397945007585 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 397945007586 SWIB/MDM2 domain; Region: SWIB; cl02489 397945007587 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 397945007588 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 397945007589 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 397945007590 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 397945007591 NAD binding site [chemical binding]; other site 397945007592 homotetramer interface [polypeptide binding]; other site 397945007593 homodimer interface [polypeptide binding]; other site 397945007594 active site 397945007595 hypothetical protein; Provisional; Region: PRK06194 397945007596 classical (c) SDRs; Region: SDR_c; cd05233 397945007597 NAD(P) binding site [chemical binding]; other site 397945007598 active site 397945007599 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945007600 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 397945007601 C-terminal domain interface [polypeptide binding]; other site 397945007602 GSH binding site (G-site) [chemical binding]; other site 397945007603 dimer interface [polypeptide binding]; other site 397945007604 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 397945007605 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945007606 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 397945007607 Prostaglandin dehydrogenases; Region: PGDH; cd05288 397945007608 NAD(P) binding site [chemical binding]; other site 397945007609 substrate binding site [chemical binding]; other site 397945007610 dimer interface [polypeptide binding]; other site 397945007611 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 397945007612 CoenzymeA binding site [chemical binding]; other site 397945007613 subunit interaction site [polypeptide binding]; other site 397945007614 PHB binding site; other site 397945007615 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 397945007616 classical (c) SDRs; Region: SDR_c; cd05233 397945007617 NAD(P) binding site [chemical binding]; other site 397945007618 active site 397945007619 Helix-turn-helix domains; Region: HTH; cl00088 397945007620 Integrase core domain; Region: rve; cl01316 397945007621 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945007622 Integrase core domain; Region: rve_3; cl15866 397945007623 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 397945007624 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945007625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945007626 active site 397945007627 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 397945007628 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 397945007629 CoenzymeA binding site [chemical binding]; other site 397945007630 subunit interaction site [polypeptide binding]; other site 397945007631 PHB binding site; other site 397945007632 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 397945007633 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 397945007634 dimer interface [polypeptide binding]; other site 397945007635 active site 397945007636 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 397945007637 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 397945007638 substrate binding site [chemical binding]; other site 397945007639 oxyanion hole (OAH) forming residues; other site 397945007640 trimer interface [polypeptide binding]; other site 397945007641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007642 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945007643 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945007644 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 397945007645 Phage-related minor tail protein [Function unknown]; Region: COG5281 397945007646 tape measure domain; Region: tape_meas_nterm; TIGR02675 397945007647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945007648 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 397945007649 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 397945007650 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 397945007651 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 397945007652 catalytic residue [active] 397945007653 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945007654 Integrase core domain; Region: rve; cl01316 397945007655 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 397945007656 AAA domain; Region: AAA_22; pfam13401 397945007657 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 397945007658 Imelysin; Region: Peptidase_M75; cl09159 397945007659 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 397945007660 Mor transcription activator family; Region: Mor; cl02360 397945007661 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 397945007662 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 397945007663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945007664 metal binding site [ion binding]; metal-binding site 397945007665 active site 397945007666 I-site; other site 397945007667 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 397945007668 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945007669 metal binding site [ion binding]; metal-binding site 397945007670 active site 397945007671 I-site; other site 397945007672 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 397945007673 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 397945007674 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 397945007675 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 397945007676 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945007677 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 397945007678 Walker A/P-loop; other site 397945007679 ATP binding site [chemical binding]; other site 397945007680 Q-loop/lid; other site 397945007681 ABC transporter signature motif; other site 397945007682 Walker B; other site 397945007683 D-loop; other site 397945007684 H-loop/switch region; other site 397945007685 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945007686 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 397945007687 Walker A/P-loop; other site 397945007688 ATP binding site [chemical binding]; other site 397945007689 Q-loop/lid; other site 397945007690 ABC transporter signature motif; other site 397945007691 Walker B; other site 397945007692 D-loop; other site 397945007693 H-loop/switch region; other site 397945007694 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 397945007695 TM-ABC transporter signature motif; other site 397945007696 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 397945007697 TM-ABC transporter signature motif; other site 397945007698 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 397945007699 putative ligand binding site [chemical binding]; other site 397945007700 Helix-turn-helix domains; Region: HTH; cl00088 397945007701 putative transposase OrfB; Reviewed; Region: PHA02517 397945007702 HTH-like domain; Region: HTH_21; pfam13276 397945007703 Integrase core domain; Region: rve; cl01316 397945007704 Integrase core domain; Region: rve_3; cl15866 397945007705 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945007706 Transposase domain (DUF772); Region: DUF772; cl15789 397945007707 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945007708 Transposase domain (DUF772); Region: DUF772; cl15789 397945007709 Transposase domain (DUF772); Region: DUF772; cl15789 397945007710 hypothetical protein; Provisional; Region: PRK10396 397945007711 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 397945007712 SEC-C motif; Region: SEC-C; pfam02810 397945007713 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 397945007714 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 397945007715 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 397945007716 multiple promoter invertase; Provisional; Region: mpi; PRK13413 397945007717 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 397945007718 catalytic residues [active] 397945007719 catalytic nucleophile [active] 397945007720 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945007721 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945007722 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945007723 Synaptic Site I dimer interface [polypeptide binding]; other site 397945007724 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 397945007725 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 397945007726 AMP-binding enzyme; Region: AMP-binding; cl15778 397945007727 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 397945007728 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 397945007729 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 397945007730 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 397945007731 Intracellular septation protein A; Region: IspA; cl01098 397945007732 BolA-like protein; Region: BolA; cl00386 397945007733 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 397945007734 PPIC-type PPIASE domain; Region: Rotamase; cl08278 397945007735 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 397945007736 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 397945007737 active site 397945007738 catalytic triad [active] 397945007739 oxyanion hole [active] 397945007740 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 397945007741 rRNA binding site [nucleotide binding]; other site 397945007742 predicted 30S ribosome binding site; other site 397945007743 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 397945007744 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 397945007745 active site 397945007746 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 397945007747 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 397945007748 threonine and homoserine efflux system; Provisional; Region: PRK10532 397945007749 N-formylglutamate amidohydrolase; Region: FGase; cl01522 397945007750 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 397945007751 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 397945007752 active site 397945007753 imidazolonepropionase; Validated; Region: PRK09356 397945007754 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 397945007755 active site 397945007756 HutD; Region: HutD; cl01532 397945007757 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 397945007758 urocanate hydratase; Provisional; Region: PRK05414 397945007759 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 397945007760 active sites [active] 397945007761 tetramer interface [polypeptide binding]; other site 397945007762 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 397945007763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945007764 DNA-binding site [nucleotide binding]; DNA binding site 397945007765 UTRA domain; Region: UTRA; cl01230 397945007766 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945007767 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 397945007768 Walker A/P-loop; other site 397945007769 ATP binding site [chemical binding]; other site 397945007770 Q-loop/lid; other site 397945007771 ABC transporter signature motif; other site 397945007772 Walker B; other site 397945007773 D-loop; other site 397945007774 H-loop/switch region; other site 397945007775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945007776 dimer interface [polypeptide binding]; other site 397945007777 conserved gate region; other site 397945007778 putative PBP binding loops; other site 397945007779 ABC-ATPase subunit interface; other site 397945007780 NMT1-like family; Region: NMT1_2; cl15260 397945007781 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 397945007782 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 397945007783 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 397945007784 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 397945007785 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 397945007786 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 397945007787 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 397945007788 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 397945007789 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 397945007790 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 397945007791 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 397945007792 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945007793 dimer interface [polypeptide binding]; other site 397945007794 phosphorylation site [posttranslational modification] 397945007795 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 397945007796 ATP binding site [chemical binding]; other site 397945007797 Mg2+ binding site [ion binding]; other site 397945007798 G-X-G motif; other site 397945007799 Response regulator receiver domain; Region: Response_reg; pfam00072 397945007800 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 397945007801 active site 397945007802 phosphorylation site [posttranslational modification] 397945007803 intermolecular recognition site; other site 397945007804 dimerization interface [polypeptide binding]; other site 397945007805 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 397945007806 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 397945007807 putative active site [active] 397945007808 heme pocket [chemical binding]; other site 397945007809 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945007810 dimer interface [polypeptide binding]; other site 397945007811 phosphorylation site [posttranslational modification] 397945007812 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 397945007813 ATP binding site [chemical binding]; other site 397945007814 Mg2+ binding site [ion binding]; other site 397945007815 G-X-G motif; other site 397945007816 Response regulator receiver domain; Region: Response_reg; pfam00072 397945007817 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 397945007818 active site 397945007819 phosphorylation site [posttranslational modification] 397945007820 intermolecular recognition site; other site 397945007821 dimerization interface [polypeptide binding]; other site 397945007822 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 397945007823 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945007824 dimer interface [polypeptide binding]; other site 397945007825 phosphorylation site [posttranslational modification] 397945007826 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 397945007827 ATP binding site [chemical binding]; other site 397945007828 Mg2+ binding site [ion binding]; other site 397945007829 G-X-G motif; other site 397945007830 Response regulator receiver domain; Region: Response_reg; pfam00072 397945007831 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 397945007832 active site 397945007833 phosphorylation site [posttranslational modification] 397945007834 intermolecular recognition site; other site 397945007835 dimerization interface [polypeptide binding]; other site 397945007836 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 397945007837 PAS fold; Region: PAS_2; pfam08446 397945007838 GAF domain; Region: GAF; cl15785 397945007839 Phytochrome region; Region: PHY; pfam00360 397945007840 Helix-turn-helix domains; Region: HTH; cl00088 397945007841 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945007842 Integrase core domain; Region: rve; cl01316 397945007843 Integrase core domain; Region: rve_3; cl15866 397945007844 adaptive-response sensory kinase; Validated; Region: PRK09303 397945007845 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 397945007846 ATP binding site [chemical binding]; other site 397945007847 Mg2+ binding site [ion binding]; other site 397945007848 G-X-G motif; other site 397945007849 Response regulator receiver domain; Region: Response_reg; pfam00072 397945007850 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 397945007851 active site 397945007852 phosphorylation site [posttranslational modification] 397945007853 intermolecular recognition site; other site 397945007854 dimerization interface [polypeptide binding]; other site 397945007855 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 397945007856 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 397945007857 ligand binding site; other site 397945007858 oligomer interface; other site 397945007859 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...; Region: LbH_G1P_AT_C; cd04651 397945007860 dimer interface [polypeptide binding]; other site 397945007861 N-terminal domain interface [polypeptide binding]; other site 397945007862 sulfate 1 binding site; other site 397945007863 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 397945007864 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 397945007865 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 397945007866 active site 397945007867 catalytic site [active] 397945007868 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 397945007869 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 397945007870 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 397945007871 catalytic site [active] 397945007872 active site 397945007873 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 397945007874 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 397945007875 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 397945007876 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 397945007877 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 397945007878 active site 397945007879 catalytic site [active] 397945007880 glycogen synthase; Provisional; Region: glgA; PRK00654 397945007881 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 397945007882 ADP-binding pocket [chemical binding]; other site 397945007883 homodimer interface [polypeptide binding]; other site 397945007884 classical (c) SDRs; Region: SDR_c; cd05233 397945007885 NAD(P) binding site [chemical binding]; other site 397945007886 active site 397945007887 ribonuclease R; Region: RNase_R; TIGR02063 397945007888 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 397945007889 RNB domain; Region: RNB; pfam00773 397945007890 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 397945007891 RNA binding site [nucleotide binding]; other site 397945007892 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 397945007893 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945007894 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945007895 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945007896 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 397945007897 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 397945007898 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 397945007899 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 397945007900 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 397945007901 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945007902 catalytic residue [active] 397945007903 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 397945007904 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 397945007905 dimer interface [polypeptide binding]; other site 397945007906 glycine-pyridoxal phosphate binding site [chemical binding]; other site 397945007907 active site 397945007908 folate binding site [chemical binding]; other site 397945007909 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 397945007910 ATP cone domain; Region: ATP-cone; pfam03477 397945007911 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 397945007912 Tetramer interface [polypeptide binding]; other site 397945007913 active site 397945007914 FMN-binding site [chemical binding]; other site 397945007915 FOG: CBS domain [General function prediction only]; Region: COG0517 397945007916 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 397945007917 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 397945007918 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 397945007919 homodimer interface [polypeptide binding]; other site 397945007920 substrate-cofactor binding pocket; other site 397945007921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945007922 catalytic residue [active] 397945007923 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 397945007924 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945007925 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 397945007926 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 397945007927 active site 397945007928 motif I; other site 397945007929 motif II; other site 397945007930 ferrochelatase; Reviewed; Region: hemH; PRK00035 397945007931 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 397945007932 C-terminal domain interface [polypeptide binding]; other site 397945007933 active site 397945007934 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 397945007935 active site 397945007936 N-terminal domain interface [polypeptide binding]; other site 397945007937 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945007938 dimerization interface [polypeptide binding]; other site 397945007939 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945007940 dimer interface [polypeptide binding]; other site 397945007941 phosphorylation site [posttranslational modification] 397945007942 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 397945007943 ATP binding site [chemical binding]; other site 397945007944 Mg2+ binding site [ion binding]; other site 397945007945 G-X-G motif; other site 397945007946 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 397945007947 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 397945007948 active site 397945007949 phosphorylation site [posttranslational modification] 397945007950 intermolecular recognition site; other site 397945007951 dimerization interface [polypeptide binding]; other site 397945007952 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945007953 DNA binding site [nucleotide binding] 397945007954 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 397945007955 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 397945007956 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945007957 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 397945007958 N-terminal plug; other site 397945007959 ligand-binding site [chemical binding]; other site 397945007960 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945007961 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945007962 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 397945007963 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945007964 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 397945007965 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945007966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945007967 NMT1-like family; Region: NMT1_2; cl15260 397945007968 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 397945007969 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 397945007970 active site 397945007971 phosphorylation site [posttranslational modification] 397945007972 intermolecular recognition site; other site 397945007973 dimerization interface [polypeptide binding]; other site 397945007974 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945007975 DNA binding site [nucleotide binding] 397945007976 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945007977 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945007978 dimer interface [polypeptide binding]; other site 397945007979 phosphorylation site [posttranslational modification] 397945007980 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 397945007981 ATP binding site [chemical binding]; other site 397945007982 Mg2+ binding site [ion binding]; other site 397945007983 G-X-G motif; other site 397945007984 Chromate transporter; Region: Chromate_transp; pfam02417 397945007985 Chromate transporter; Region: Chromate_transp; pfam02417 397945007986 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 397945007987 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 397945007988 active site 397945007989 catalytic tetrad [active] 397945007990 NAD-dependent deacetylase; Provisional; Region: PRK00481 397945007991 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 397945007992 NAD+ binding site [chemical binding]; other site 397945007993 substrate binding site [chemical binding]; other site 397945007994 Zn binding site [ion binding]; other site 397945007995 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 397945007996 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 397945007997 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 397945007998 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 397945007999 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 397945008000 Walker A/P-loop; other site 397945008001 ATP binding site [chemical binding]; other site 397945008002 Q-loop/lid; other site 397945008003 ABC transporter signature motif; other site 397945008004 Walker B; other site 397945008005 D-loop; other site 397945008006 H-loop/switch region; other site 397945008007 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 397945008008 active site 397945008009 catalytic triad [active] 397945008010 oxyanion hole [active] 397945008011 switch loop; other site 397945008012 cystathionine beta-lyase; Provisional; Region: PRK07050 397945008013 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 397945008014 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945008015 catalytic residue [active] 397945008016 BON domain; Region: BON; cl02771 397945008017 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 397945008018 Sulfate transporter family; Region: Sulfate_transp; cl15842 397945008019 Sulfate transporter family; Region: Sulfate_transp; cl15842 397945008020 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 397945008021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008022 metal binding site [ion binding]; metal-binding site 397945008023 active site 397945008024 I-site; other site 397945008025 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 397945008026 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 397945008027 P-loop; other site 397945008028 rhodanese superfamily protein; Provisional; Region: PRK05320 397945008029 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 397945008030 active site residue [active] 397945008031 Pirin-related protein [General function prediction only]; Region: COG1741 397945008032 Cupin domain; Region: Cupin_2; cl09118 397945008033 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 397945008034 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945008035 Pirin-related protein [General function prediction only]; Region: COG1741 397945008036 Cupin domain; Region: Cupin_2; cl09118 397945008037 Helix-turn-helix domains; Region: HTH; cl00088 397945008038 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 397945008039 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 397945008040 dimerization interface [polypeptide binding]; other site 397945008041 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 397945008042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008043 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945008044 active site 397945008045 HIGH motif; other site 397945008046 nucleotide binding site [chemical binding]; other site 397945008047 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945008048 active site 397945008049 KMSKS motif; other site 397945008050 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 397945008051 S-adenosylmethionine binding site [chemical binding]; other site 397945008052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008053 metal binding site [ion binding]; metal-binding site 397945008054 active site 397945008055 I-site; other site 397945008056 alanyl-tRNA synthetase; Region: PLN02900 397945008057 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 397945008058 motif 1; other site 397945008059 active site 397945008060 motif 2; other site 397945008061 motif 3; other site 397945008062 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 397945008063 DHHA1 domain; Region: DHHA1; pfam02272 397945008064 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 397945008065 Cytochrome c; Region: Cytochrom_C; cl11414 397945008066 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 397945008067 Helix-turn-helix domains; Region: HTH; cl00088 397945008068 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 397945008069 substrate binding site [chemical binding]; other site 397945008070 dimerization interface [polypeptide binding]; other site 397945008071 TOBE domain; Region: TOBE_2; cl01440 397945008072 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 397945008073 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 397945008074 Walker A/P-loop; other site 397945008075 ATP binding site [chemical binding]; other site 397945008076 Q-loop/lid; other site 397945008077 ABC transporter signature motif; other site 397945008078 Walker B; other site 397945008079 D-loop; other site 397945008080 H-loop/switch region; other site 397945008081 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 397945008082 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945008083 putative PBP binding loops; other site 397945008084 dimer interface [polypeptide binding]; other site 397945008085 ABC-ATPase subunit interface; other site 397945008086 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_9; cd07245 397945008087 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945008088 dimer interface [polypeptide binding]; other site 397945008089 putative metal binding site [ion binding]; other site 397945008090 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 397945008091 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 397945008092 active site 397945008093 dimer interface [polypeptide binding]; other site 397945008094 non-prolyl cis peptide bond; other site 397945008095 insertion regions; other site 397945008096 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 397945008097 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945008098 substrate binding pocket [chemical binding]; other site 397945008099 membrane-bound complex binding site; other site 397945008100 hinge residues; other site 397945008101 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 397945008102 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945008103 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 397945008104 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; cl15754 397945008105 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 397945008106 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945008107 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 397945008108 putative substrate translocation pore; other site 397945008109 AvrPphF-ORF-2; Region: AvrPphF-ORF-2; pfam09143 397945008110 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 397945008111 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 397945008112 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 397945008113 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 397945008114 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 397945008115 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 397945008116 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 397945008117 Active Sites [active] 397945008118 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 397945008119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008120 G1 box; other site 397945008121 GTP/Mg2+ binding site [chemical binding]; other site 397945008122 G2 box; other site 397945008123 Switch I region; other site 397945008124 G3 box; other site 397945008125 Switch II region; other site 397945008126 G4 box; other site 397945008127 G5 box; other site 397945008128 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 397945008129 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 397945008130 Ferredoxin [Energy production and conversion]; Region: COG1146 397945008131 4Fe-4S binding domain; Region: Fer4; cl02805 397945008132 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 397945008133 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 397945008134 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945008135 phosphopeptide binding site; other site 397945008136 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 397945008137 YcaO-like family; Region: YcaO; pfam02624 397945008138 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 397945008139 Zeta toxin; Region: Zeta_toxin; pfam06414 397945008140 Leucine carboxyl methyltransferase; Region: LCM; cl01306 397945008141 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 397945008142 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 397945008143 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945008144 active site 397945008145 ATP binding site [chemical binding]; other site 397945008146 substrate binding site [chemical binding]; other site 397945008147 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 397945008148 activation loop (A-loop); other site 397945008149 cyclase homology domain; Region: CHD; cd07302 397945008150 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008151 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 397945008152 dimer interface [polypeptide binding]; other site 397945008153 substrate binding site [chemical binding]; other site 397945008154 ATP binding site [chemical binding]; other site 397945008155 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 397945008156 Ubiquitin-like proteins; Region: UBQ; cl00155 397945008157 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 397945008158 ThiS interaction site; other site 397945008159 putative active site [active] 397945008160 tetramer interface [polypeptide binding]; other site 397945008161 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 397945008162 thiamine phosphate binding site [chemical binding]; other site 397945008163 active site 397945008164 pyrophosphate binding site [ion binding]; other site 397945008165 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 397945008166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008167 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945008168 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945008169 enoyl-CoA hydratase; Provisional; Region: PRK07511 397945008170 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 397945008171 substrate binding site [chemical binding]; other site 397945008172 oxyanion hole (OAH) forming residues; other site 397945008173 trimer interface [polypeptide binding]; other site 397945008174 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945008175 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 397945008176 ligand binding site [chemical binding]; other site 397945008177 flexible hinge region; other site 397945008178 Helix-turn-helix domains; Region: HTH; cl00088 397945008179 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 397945008180 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 397945008181 putative active site [active] 397945008182 putative substrate binding site [chemical binding]; other site 397945008183 ATP binding site [chemical binding]; other site 397945008184 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945008185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945008186 active site 397945008187 cyclase homology domain; Region: CHD; cd07302 397945008188 nucleotidyl binding site; other site 397945008189 metal binding site [ion binding]; metal-binding site 397945008190 dimer interface [polypeptide binding]; other site 397945008191 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945008192 phosphopeptide binding site; other site 397945008193 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 397945008194 dimer interface [polypeptide binding]; other site 397945008195 catalytic triad [active] 397945008196 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 397945008197 nucleoside/Zn binding site; other site 397945008198 dimer interface [polypeptide binding]; other site 397945008199 catalytic motif [active] 397945008200 haloalkane dehalogenase; Provisional; Region: PRK00870 397945008201 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945008202 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 397945008203 dimerization interface [polypeptide binding]; other site 397945008204 ligand binding site [chemical binding]; other site 397945008205 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 397945008206 Peptidase family U32; Region: Peptidase_U32; cl03113 397945008207 Collagenase; Region: DUF3656; pfam12392 397945008208 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 397945008209 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945008210 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945008211 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 397945008212 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 397945008213 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 397945008214 homodimer interface [polypeptide binding]; other site 397945008215 substrate-cofactor binding pocket; other site 397945008216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008217 catalytic residue [active] 397945008218 TIGR03440 family protein; Region: unchr_TIGR03440 397945008219 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 397945008220 probable methyltransferase; Region: TIGR03438 397945008221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008222 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 397945008223 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 397945008224 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945008225 dimer interface [polypeptide binding]; other site 397945008226 phosphorylation site [posttranslational modification] 397945008227 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 397945008228 ATP binding site [chemical binding]; other site 397945008229 Mg2+ binding site [ion binding]; other site 397945008230 G-X-G motif; other site 397945008231 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 397945008232 Protein of unknown function (DUF808); Region: DUF808; cl01002 397945008233 GAF domain; Region: GAF; cl15785 397945008234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008235 metal binding site [ion binding]; metal-binding site 397945008236 I-site; other site 397945008237 active site 397945008238 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 397945008239 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; cl02712 397945008240 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 397945008241 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 397945008242 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 397945008243 dimerization interface [polypeptide binding]; other site 397945008244 ATP binding site [chemical binding]; other site 397945008245 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 397945008246 dimerization interface [polypeptide binding]; other site 397945008247 ATP binding site [chemical binding]; other site 397945008248 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 397945008249 putative active site [active] 397945008250 catalytic triad [active] 397945008251 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 397945008252 active site 397945008253 PII uridylyl-transferase; Provisional; Region: PRK03059 397945008254 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 397945008255 metal binding triad; other site 397945008256 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 397945008257 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945008258 Zn2+ binding site [ion binding]; other site 397945008259 Mg2+ binding site [ion binding]; other site 397945008260 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 397945008261 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 397945008262 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 397945008263 active site 397945008264 catalytic residues [active] 397945008265 metal binding site [ion binding]; metal-binding site 397945008266 Protein of unknown function (DUF454); Region: DUF454; cl01063 397945008267 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945008268 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 397945008269 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 397945008270 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945008271 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945008272 Helix-turn-helix domains; Region: HTH; cl00088 397945008273 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945008274 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 397945008275 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945008276 2-isopropylmalate synthase; Validated; Region: PRK00915 397945008277 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 397945008278 active site 397945008279 catalytic residues [active] 397945008280 metal binding site [ion binding]; metal-binding site 397945008281 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 397945008282 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 397945008283 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 397945008284 ketol-acid reductoisomerase; Provisional; Region: PRK05479 397945008285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008286 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 397945008287 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 397945008288 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 397945008289 putative valine binding site [chemical binding]; other site 397945008290 dimer interface [polypeptide binding]; other site 397945008291 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 397945008292 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 397945008293 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 397945008294 PYR/PP interface [polypeptide binding]; other site 397945008295 dimer interface [polypeptide binding]; other site 397945008296 TPP binding site [chemical binding]; other site 397945008297 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 397945008298 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 397945008299 TPP-binding site [chemical binding]; other site 397945008300 dimer interface [polypeptide binding]; other site 397945008301 RNA polymerase factor sigma-70; Validated; Region: PRK09047 397945008302 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945008303 DNA binding residues [nucleotide binding] 397945008304 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 397945008305 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 397945008306 RDD family; Region: RDD; cl00746 397945008307 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 397945008308 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 397945008309 Nitrogen regulatory protein P-II; Region: P-II; cl00412 397945008310 NAD synthetase; Provisional; Region: PRK13981 397945008311 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 397945008312 multimer interface [polypeptide binding]; other site 397945008313 active site 397945008314 catalytic triad [active] 397945008315 protein interface 1 [polypeptide binding]; other site 397945008316 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 397945008317 homodimer interface [polypeptide binding]; other site 397945008318 NAD binding pocket [chemical binding]; other site 397945008319 ATP binding pocket [chemical binding]; other site 397945008320 Mg binding site [ion binding]; other site 397945008321 active-site loop [active] 397945008322 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945008323 Protein of unknown function, DUF482; Region: DUF482; pfam04339 397945008324 Helix-turn-helix domains; Region: HTH; cl00088 397945008325 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 397945008326 dimerization interface [polypeptide binding]; other site 397945008327 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 397945008328 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 397945008329 metal binding site [ion binding]; metal-binding site 397945008330 putative dimer interface [polypeptide binding]; other site 397945008331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945008332 NMT1-like family; Region: NMT1_2; cl15260 397945008333 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 397945008334 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 397945008335 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 397945008336 PAS domain; Region: PAS_9; pfam13426 397945008337 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 397945008338 putative active site [active] 397945008339 heme pocket [chemical binding]; other site 397945008340 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945008341 DNA binding residues [nucleotide binding] 397945008342 dimerization interface [polypeptide binding]; other site 397945008343 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 397945008344 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945008345 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 397945008346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 397945008347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 397945008348 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 397945008349 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 397945008350 dimer interface [polypeptide binding]; other site 397945008351 active site 397945008352 heme binding site [chemical binding]; other site 397945008353 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 397945008354 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 397945008355 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 397945008356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945008357 Helix-turn-helix domains; Region: HTH; cl00088 397945008358 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 397945008359 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 397945008360 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 397945008361 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 397945008362 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 397945008363 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 397945008364 tetramer interface [polypeptide binding]; other site 397945008365 heme binding pocket [chemical binding]; other site 397945008366 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 397945008367 classical (c) SDRs; Region: SDR_c; cd05233 397945008368 NAD(P) binding site [chemical binding]; other site 397945008369 active site 397945008370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008371 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 397945008372 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 397945008373 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 397945008374 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 397945008375 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 397945008376 zinc binding site [ion binding]; other site 397945008377 putative ligand binding site [chemical binding]; other site 397945008378 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 397945008379 TM-ABC transporter signature motif; other site 397945008380 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 397945008381 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008382 Walker A/P-loop; other site 397945008383 ATP binding site [chemical binding]; other site 397945008384 Q-loop/lid; other site 397945008385 ABC transporter signature motif; other site 397945008386 Walker B; other site 397945008387 D-loop; other site 397945008388 H-loop/switch region; other site 397945008389 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945008390 Helix-turn-helix domains; Region: HTH; cl00088 397945008391 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 397945008392 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 397945008393 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 397945008394 lipoyl attachment site [posttranslational modification]; other site 397945008395 glycine dehydrogenase; Provisional; Region: PRK05367 397945008396 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 397945008397 tetramer interface [polypeptide binding]; other site 397945008398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008399 catalytic residue [active] 397945008400 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 397945008401 tetramer interface [polypeptide binding]; other site 397945008402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008403 catalytic residue [active] 397945008404 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 397945008405 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 397945008406 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945008407 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945008408 dimer interface [polypeptide binding]; other site 397945008409 phosphorylation site [posttranslational modification] 397945008410 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 397945008411 ATP binding site [chemical binding]; other site 397945008412 Mg2+ binding site [ion binding]; other site 397945008413 G-X-G motif; other site 397945008414 Response regulator receiver domain; Region: Response_reg; pfam00072 397945008415 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 397945008416 active site 397945008417 phosphorylation site [posttranslational modification] 397945008418 intermolecular recognition site; other site 397945008419 dimerization interface [polypeptide binding]; other site 397945008420 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 397945008421 active site 397945008422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008423 short chain dehydrogenase; Provisional; Region: PRK07023 397945008424 NAD(P) binding site [chemical binding]; other site 397945008425 active site 397945008426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945008427 NMT1-like family; Region: NMT1_2; cl15260 397945008428 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 397945008429 Ligand Binding Site [chemical binding]; other site 397945008430 Biofilm formation and stress response factor; Region: BsmA; cl01794 397945008431 PilZ domain; Region: PilZ; cl01260 397945008432 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 397945008433 AMP-binding enzyme; Region: AMP-binding; cl15778 397945008434 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945008435 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 397945008436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008437 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 397945008438 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 397945008439 dimerization interface [polypeptide binding]; other site 397945008440 ligand binding site [chemical binding]; other site 397945008441 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 397945008442 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 397945008443 interface (dimer of trimers) [polypeptide binding]; other site 397945008444 Substrate-binding/catalytic site; other site 397945008445 Zn-binding sites [ion binding]; other site 397945008446 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 397945008447 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 397945008448 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 397945008449 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 397945008450 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 397945008451 putative active site [active] 397945008452 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 397945008453 Helix-turn-helix domains; Region: HTH; cl00088 397945008454 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 397945008455 substrate binding site [chemical binding]; other site 397945008456 dimerization interface [polypeptide binding]; other site 397945008457 methionine aminotransferase; Validated; Region: PRK09082 397945008458 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 397945008459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008460 homodimer interface [polypeptide binding]; other site 397945008461 catalytic residue [active] 397945008462 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 397945008463 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 397945008464 substrate binding pocket [chemical binding]; other site 397945008465 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 397945008466 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 397945008467 homotrimer interaction site [polypeptide binding]; other site 397945008468 putative active site [active] 397945008469 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945008470 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 397945008471 Walker A/P-loop; other site 397945008472 ATP binding site [chemical binding]; other site 397945008473 Q-loop/lid; other site 397945008474 ABC transporter signature motif; other site 397945008475 Walker B; other site 397945008476 D-loop; other site 397945008477 H-loop/switch region; other site 397945008478 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945008479 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 397945008480 Walker A/P-loop; other site 397945008481 ATP binding site [chemical binding]; other site 397945008482 Q-loop/lid; other site 397945008483 ABC transporter signature motif; other site 397945008484 Walker B; other site 397945008485 D-loop; other site 397945008486 H-loop/switch region; other site 397945008487 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 397945008488 TM-ABC transporter signature motif; other site 397945008489 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 397945008490 TM-ABC transporter signature motif; other site 397945008491 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945008492 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 397945008493 putative ligand binding site [chemical binding]; other site 397945008494 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 397945008495 AMP-binding enzyme; Region: AMP-binding; cl15778 397945008496 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945008497 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945008498 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945008499 active site 397945008500 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 397945008501 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 397945008502 substrate binding site [chemical binding]; other site 397945008503 oxyanion hole (OAH) forming residues; other site 397945008504 trimer interface [polypeptide binding]; other site 397945008505 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945008506 Helix-turn-helix domains; Region: HTH; cl00088 397945008507 Helix-turn-helix domains; Region: HTH; cl00088 397945008508 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 397945008509 classical (c) SDRs; Region: SDR_c; cd05233 397945008510 NAD(P) binding site [chemical binding]; other site 397945008511 active site 397945008512 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 397945008513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008515 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 397945008516 active site 397945008517 FMN binding site [chemical binding]; other site 397945008518 substrate binding site [chemical binding]; other site 397945008519 homotetramer interface [polypeptide binding]; other site 397945008520 catalytic residue [active] 397945008521 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945008522 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 397945008523 PAS domain; Region: PAS_9; pfam13426 397945008524 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 397945008525 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 397945008526 ATP binding site [chemical binding]; other site 397945008527 Mg2+ binding site [ion binding]; other site 397945008528 G-X-G motif; other site 397945008529 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 397945008530 B1 nucleotide binding pocket [chemical binding]; other site 397945008531 B2 nucleotide binding pocket [chemical binding]; other site 397945008532 CAS motifs; other site 397945008533 active site 397945008534 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 397945008535 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 397945008536 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 397945008537 putative active site [active] 397945008538 putative metal-binding site [ion binding]; other site 397945008539 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945008540 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008541 Helix-turn-helix domains; Region: HTH; cl00088 397945008542 putative transposase OrfB; Reviewed; Region: PHA02517 397945008543 HTH-like domain; Region: HTH_21; pfam13276 397945008544 Integrase core domain; Region: rve; cl01316 397945008545 Integrase core domain; Region: rve_3; cl15866 397945008546 ribonuclease G; Provisional; Region: PRK11712 397945008547 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 397945008548 homodimer interface [polypeptide binding]; other site 397945008549 oligonucleotide binding site [chemical binding]; other site 397945008550 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 397945008551 Maf-like protein; Region: Maf; pfam02545 397945008552 active site 397945008553 dimer interface [polypeptide binding]; other site 397945008554 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 397945008555 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 397945008556 Oligomerisation domain; Region: Oligomerisation; cl00519 397945008557 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 397945008558 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 397945008559 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 397945008560 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945008561 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 397945008562 Transcriptional regulator; Region: Transcrip_reg; cl00361 397945008563 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 397945008564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008565 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945008566 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 397945008567 Helix-turn-helix domains; Region: HTH; cl00088 397945008568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945008569 Integrase core domain; Region: rve; cl01316 397945008570 Integrase core domain; Region: rve_3; cl15866 397945008571 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945008572 Helix-turn-helix domains; Region: HTH; cl00088 397945008573 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945008574 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945008575 FAD binding domain; Region: FAD_binding_4; pfam01565 397945008576 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 397945008577 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 397945008578 tetramer interface [polypeptide binding]; other site 397945008579 active site 397945008580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945008581 NMT1-like family; Region: NMT1_2; cl15260 397945008582 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 397945008583 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 it...; Region: TST_Repeat_1; cd01448 397945008584 active site residue [active] 397945008585 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 397945008586 active site residue [active] 397945008587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945008588 NMT1-like family; Region: NMT1_2; cl15260 397945008589 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 397945008590 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 397945008591 molybdopterin cofactor binding site [chemical binding]; other site 397945008592 substrate binding site [chemical binding]; other site 397945008593 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 397945008594 molybdopterin cofactor binding site; other site 397945008595 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 397945008596 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 397945008597 C-terminal domain interface [polypeptide binding]; other site 397945008598 GSH binding site (G-site) [chemical binding]; other site 397945008599 dimer interface [polypeptide binding]; other site 397945008600 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 397945008601 N-terminal domain interface [polypeptide binding]; other site 397945008602 putative dimer interface [polypeptide binding]; other site 397945008603 active site 397945008604 enoyl-CoA hydratase; Provisional; Region: PRK06142 397945008605 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 397945008606 substrate binding site [chemical binding]; other site 397945008607 oxyanion hole (OAH) forming residues; other site 397945008608 trimer interface [polypeptide binding]; other site 397945008609 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 397945008610 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 397945008611 tetramer interface [polypeptide binding]; other site 397945008612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945008613 catalytic residue [active] 397945008614 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945008615 active site 397945008616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945008617 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945008618 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 397945008619 cytosine deaminase; Validated; Region: PRK07572 397945008620 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 397945008621 active site 397945008622 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945008623 DNA binding site [nucleotide binding] 397945008624 TolB amino-terminal domain; Region: TolB_N; cl00639 397945008625 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 397945008626 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 397945008627 binding surface 397945008628 TPR motif; other site 397945008629 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 397945008630 HSP70 interaction site [polypeptide binding]; other site 397945008631 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945008632 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945008633 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 397945008634 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945008635 NAD(P) binding site [chemical binding]; other site 397945008636 catalytic residues [active] 397945008637 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 397945008638 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 397945008639 NAD binding site [chemical binding]; other site 397945008640 substrate binding site [chemical binding]; other site 397945008641 catalytic Zn binding site [ion binding]; other site 397945008642 tetramer interface [polypeptide binding]; other site 397945008643 structural Zn binding site [ion binding]; other site 397945008644 Protein of unknown function (DUF779); Region: DUF779; cl01432 397945008645 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 397945008646 GAF domain; Region: GAF; cl15785 397945008647 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945008648 Walker A motif; other site 397945008649 ATP binding site [chemical binding]; other site 397945008650 Walker B motif; other site 397945008651 arginine finger; other site 397945008652 Helix-turn-helix domains; Region: HTH; cl00088 397945008653 NAD-dependent deacetylase; Provisional; Region: PRK05333 397945008654 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 397945008655 exonuclease I; Provisional; Region: sbcB; PRK11779 397945008656 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 397945008657 active site 397945008658 substrate binding site [chemical binding]; other site 397945008659 catalytic site [active] 397945008660 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 397945008661 Transglycosylase SLT domain; Region: SLT_2; pfam13406 397945008662 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 397945008663 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 397945008664 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 397945008665 Clp amino terminal domain; Region: Clp_N; pfam02861 397945008666 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945008667 Walker A motif; other site 397945008668 ATP binding site [chemical binding]; other site 397945008669 Walker B motif; other site 397945008670 arginine finger; other site 397945008671 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945008672 Walker A motif; other site 397945008673 ATP binding site [chemical binding]; other site 397945008674 Walker B motif; other site 397945008675 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 397945008676 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 397945008677 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 397945008678 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 397945008679 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 397945008680 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 397945008681 generic binding surface II; other site 397945008682 generic binding surface I; other site 397945008683 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 397945008684 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 397945008685 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008687 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; cd00143 397945008688 active site 397945008689 Predicted ATPase [General function prediction only]; Region: COG1485 397945008690 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 397945008691 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945008692 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 397945008693 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 397945008694 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 397945008695 E3 interaction surface; other site 397945008696 lipoyl attachment site [posttranslational modification]; other site 397945008697 e3 binding domain; Region: E3_binding; pfam02817 397945008698 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 397945008699 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 397945008700 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 397945008701 TPP-binding site [chemical binding]; other site 397945008702 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 397945008703 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 397945008704 PAS fold; Region: PAS_4; pfam08448 397945008705 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 397945008706 putative active site [active] 397945008707 heme pocket [chemical binding]; other site 397945008708 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 397945008709 PAS domain; Region: PAS_9; pfam13426 397945008710 putative active site [active] 397945008711 heme pocket [chemical binding]; other site 397945008712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945008713 metal binding site [ion binding]; metal-binding site 397945008714 active site 397945008715 I-site; other site 397945008716 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 397945008717 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 397945008718 Walker A/P-loop; other site 397945008719 ATP binding site [chemical binding]; other site 397945008720 Q-loop/lid; other site 397945008721 ABC transporter signature motif; other site 397945008722 Walker B; other site 397945008723 D-loop; other site 397945008724 H-loop/switch region; other site 397945008725 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945008726 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 397945008727 Walker A/P-loop; other site 397945008728 ATP binding site [chemical binding]; other site 397945008729 Q-loop/lid; other site 397945008730 ABC transporter signature motif; other site 397945008731 Walker B; other site 397945008732 D-loop; other site 397945008733 H-loop/switch region; other site 397945008734 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945008735 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 397945008736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945008737 dimer interface [polypeptide binding]; other site 397945008738 conserved gate region; other site 397945008739 putative PBP binding loops; other site 397945008740 ABC-ATPase subunit interface; other site 397945008741 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 397945008742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945008743 dimer interface [polypeptide binding]; other site 397945008744 conserved gate region; other site 397945008745 putative PBP binding loops; other site 397945008746 ABC-ATPase subunit interface; other site 397945008747 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 397945008748 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 397945008749 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 397945008750 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 397945008751 NAD binding site [chemical binding]; other site 397945008752 homotetramer interface [polypeptide binding]; other site 397945008753 homodimer interface [polypeptide binding]; other site 397945008754 substrate binding site [chemical binding]; other site 397945008755 active site 397945008756 Fasciclin domain; Region: Fasciclin; cl02663 397945008757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 397945008758 lysine decarboxylase LdcC; Provisional; Region: PRK15399 397945008759 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 397945008760 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945008761 catalytic residue [active] 397945008762 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 397945008763 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 397945008764 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 397945008765 Transposase domain (DUF772); Region: DUF772; cl15789 397945008766 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945008767 Transposase domain (DUF772); Region: DUF772; cl15789 397945008768 Transposase domain (DUF772); Region: DUF772; cl15789 397945008769 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 397945008770 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945008771 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 397945008772 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945008773 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 397945008774 N-terminal plug; other site 397945008775 ligand-binding site [chemical binding]; other site 397945008776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945008777 NMT1-like family; Region: NMT1_2; cl15260 397945008778 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 397945008779 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945008780 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945008781 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 397945008782 active site 397945008783 phosphorylation site [posttranslational modification] 397945008784 intermolecular recognition site; other site 397945008785 dimerization interface [polypeptide binding]; other site 397945008786 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945008787 DNA binding site [nucleotide binding] 397945008788 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945008789 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945008790 dimer interface [polypeptide binding]; other site 397945008791 phosphorylation site [posttranslational modification] 397945008792 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 397945008793 ATP binding site [chemical binding]; other site 397945008794 Mg2+ binding site [ion binding]; other site 397945008795 G-X-G motif; other site 397945008796 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 397945008797 active site 397945008798 catalytic triad [active] 397945008799 oxyanion hole [active] 397945008800 phosphoglycolate phosphatase; Provisional; Region: PRK13222 397945008801 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 397945008802 motif II; other site 397945008803 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 397945008804 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 397945008805 S-adenosylmethionine binding site [chemical binding]; other site 397945008806 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945008807 ligand binding site [chemical binding]; other site 397945008808 DNA gyrase subunit A; Validated; Region: PRK05560 397945008809 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 397945008810 CAP-like domain; other site 397945008811 active site 397945008812 primary dimer interface [polypeptide binding]; other site 397945008813 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945008814 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945008815 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945008816 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945008817 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945008818 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 397945008819 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 397945008820 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945008821 catalytic residue [active] 397945008822 Chorismate mutase type II; Region: CM_2; cl00693 397945008823 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 397945008824 Prephenate dehydratase; Region: PDT; pfam00800 397945008825 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 397945008826 putative L-Phe binding site [chemical binding]; other site 397945008827 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 397945008828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008829 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 397945008830 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 397945008831 hinge; other site 397945008832 active site 397945008833 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 397945008834 CMP-binding site; other site 397945008835 The sites determining sugar specificity; other site 397945008836 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 397945008837 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 397945008838 RNA binding site [nucleotide binding]; other site 397945008839 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 397945008840 RNA binding site [nucleotide binding]; other site 397945008841 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 397945008842 RNA binding site [nucleotide binding]; other site 397945008843 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 397945008844 RNA binding site [nucleotide binding]; other site 397945008845 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 397945008846 RNA binding site [nucleotide binding]; other site 397945008847 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 397945008848 RNA binding site [nucleotide binding]; other site 397945008849 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 397945008850 IHF dimer interface [polypeptide binding]; other site 397945008851 IHF - DNA interface [nucleotide binding]; other site 397945008852 tetratricopeptide repeat protein; Provisional; Region: PRK11788 397945008853 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 397945008854 binding surface 397945008855 TPR motif; other site 397945008856 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945008857 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 397945008858 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 397945008859 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 397945008860 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 397945008861 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 397945008862 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 397945008863 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 397945008864 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 397945008865 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 397945008866 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 397945008867 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 397945008868 5-oxoprolinase; Region: PLN02666 397945008869 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 397945008870 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 397945008871 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 397945008872 putative active site [active] 397945008873 Zn binding site [ion binding]; other site 397945008874 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945008875 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945008876 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945008877 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945008878 DctM-like transporters; Region: DctM; pfam06808 397945008879 CrcB-like protein; Region: CRCB; cl09114 397945008880 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 397945008881 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 397945008882 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945008883 putative substrate translocation pore; other site 397945008884 RmuC family; Region: RmuC; pfam02646 397945008885 glyoxylate reductase; Reviewed; Region: PRK13243 397945008886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008887 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 397945008888 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 397945008889 active site 397945008890 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 397945008891 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 397945008892 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 397945008893 active site 397945008894 Phasin protein; Region: Phasin_2; cl11491 397945008895 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 397945008896 Gram-negative bacterial tonB protein; Region: TonB; cl10048 397945008897 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 397945008898 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 397945008899 Hemin uptake protein hemP; Region: hemP; cl10043 397945008900 Domain of unknown function (DUF336); Region: DUF336; cl01249 397945008901 YccA-like proteins; Region: YccA_like; cd10433 397945008902 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 397945008903 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; cl15754 397945008904 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 397945008905 Helix-turn-helix domains; Region: HTH; cl00088 397945008906 Helix-turn-helix domains; Region: HTH; cl00088 397945008907 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 397945008908 Proline dehydrogenase; Region: Pro_dh; cl03282 397945008909 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 397945008910 NAD(P) binding site [chemical binding]; other site 397945008911 catalytic residues [active] 397945008912 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 397945008913 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 397945008914 dimer interface [polypeptide binding]; other site 397945008915 putative PBP binding regions; other site 397945008916 ABC-ATPase subunit interface; other site 397945008917 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 397945008918 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 397945008919 putative ligand binding residues [chemical binding]; other site 397945008920 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 397945008921 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 397945008922 Walker A/P-loop; other site 397945008923 ATP binding site [chemical binding]; other site 397945008924 Q-loop/lid; other site 397945008925 ABC transporter signature motif; other site 397945008926 Walker B; other site 397945008927 D-loop; other site 397945008928 H-loop/switch region; other site 397945008929 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945008930 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 397945008931 N-terminal plug; other site 397945008932 ligand-binding site [chemical binding]; other site 397945008933 glutathionine S-transferase; Provisional; Region: PRK10542 397945008934 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 397945008935 C-terminal domain interface [polypeptide binding]; other site 397945008936 GSH binding site (G-site) [chemical binding]; other site 397945008937 dimer interface [polypeptide binding]; other site 397945008938 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 397945008939 dimer interface [polypeptide binding]; other site 397945008940 N-terminal domain interface [polypeptide binding]; other site 397945008941 substrate binding pocket (H-site) [chemical binding]; other site 397945008942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945008943 NMT1-like family; Region: NMT1_2; cl15260 397945008944 NMT1-like family; Region: NMT1_2; cl15260 397945008945 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945008946 Helix-turn-helix domains; Region: HTH; cl00088 397945008947 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945008948 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 397945008949 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 397945008950 dimer interface [polypeptide binding]; other site 397945008951 ADP-ribose binding site [chemical binding]; other site 397945008952 active site 397945008953 nudix motif; other site 397945008954 metal binding site [ion binding]; metal-binding site 397945008955 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 397945008956 DNA-binding site [nucleotide binding]; DNA binding site 397945008957 RNA-binding motif; other site 397945008958 Helix-turn-helix domains; Region: HTH; cl00088 397945008959 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 397945008960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008962 hypothetical protein; Provisional; Region: PRK08317 397945008963 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945008964 Helix-turn-helix domains; Region: HTH; cl00088 397945008965 Integrase core domain; Region: rve; cl01316 397945008966 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945008967 Integrase core domain; Region: rve_3; cl15866 397945008968 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945008969 RHS protein; Region: RHS; pfam03527 397945008970 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945008971 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 397945008972 RNAase interaction site [polypeptide binding]; other site 397945008973 PAAR motif; Region: PAAR_motif; cl15808 397945008974 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945008975 RHS Repeat; Region: RHS_repeat; cl11982 397945008976 RHS Repeat; Region: RHS_repeat; cl11982 397945008977 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945008978 RHS Repeat; Region: RHS_repeat; cl11982 397945008979 RHS Repeat; Region: RHS_repeat; cl11982 397945008980 RHS Repeat; Region: RHS_repeat; cl11982 397945008981 RHS Repeat; Region: RHS_repeat; cl11982 397945008982 RHS protein; Region: RHS; pfam03527 397945008983 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945008984 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 397945008985 active site 397945008986 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 397945008987 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945008988 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945008989 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945008990 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 397945008991 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 397945008992 short chain dehydrogenase; Provisional; Region: PRK06523 397945008993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945008994 NAD(P) binding site [chemical binding]; other site 397945008995 active site 397945008996 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 397945008997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945008998 Helix-turn-helix domains; Region: HTH; cl00088 397945008999 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 397945009000 putative effector binding pocket; other site 397945009001 putative dimerization interface [polypeptide binding]; other site 397945009002 Helix-turn-helix domains; Region: HTH; cl00088 397945009003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945009004 Integrase core domain; Region: rve; cl01316 397945009005 Integrase core domain; Region: rve_3; cl15866 397945009006 putative transposase OrfB; Reviewed; Region: PHA02517 397945009007 HTH-like domain; Region: HTH_21; pfam13276 397945009008 Integrase core domain; Region: rve; cl01316 397945009009 Integrase core domain; Region: rve_3; cl15866 397945009010 Helix-turn-helix domains; Region: HTH; cl00088 397945009011 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 397945009012 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 397945009013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009014 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 397945009015 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 397945009016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009017 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 397945009018 Q-loop/lid; other site 397945009019 ABC transporter signature motif; other site 397945009020 Walker B; other site 397945009021 D-loop; other site 397945009022 H-loop/switch region; other site 397945009023 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 397945009024 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 397945009025 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 397945009026 HsdM N-terminal domain; Region: HsdM_N; pfam12161 397945009027 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 397945009028 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 397945009029 S-adenosylmethionine binding site [chemical binding]; other site 397945009030 Uncharacterized conserved protein [Function unknown]; Region: COG4127 397945009031 Restriction endonuclease; Region: Mrr_cat; cl00516 397945009032 Predicted transcriptional regulator [Transcription]; Region: COG4190 397945009033 Helix-turn-helix domains; Region: HTH; cl00088 397945009034 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 397945009035 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 397945009036 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 397945009037 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 397945009038 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 397945009039 active site 397945009040 Int/Topo IB signature motif; other site 397945009041 GMP synthase; Reviewed; Region: guaA; PRK00074 397945009042 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 397945009043 AMP/PPi binding site [chemical binding]; other site 397945009044 candidate oxyanion hole; other site 397945009045 catalytic triad [active] 397945009046 potential glutamine specificity residues [chemical binding]; other site 397945009047 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 397945009048 ATP Binding subdomain [chemical binding]; other site 397945009049 Ligand Binding sites [chemical binding]; other site 397945009050 Dimerization subdomain; other site 397945009051 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 397945009052 putative active site [active] 397945009053 homotetrameric interface [polypeptide binding]; other site 397945009054 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 397945009055 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 397945009056 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 397945009057 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 397945009058 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 397945009059 active site 397945009060 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 397945009061 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 397945009062 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 397945009063 putative coenzyme Q binding site [chemical binding]; other site 397945009064 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 397945009065 SmpB-tmRNA interface; other site 397945009066 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 397945009067 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 397945009068 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 397945009069 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945009070 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945009071 DNA binding residues [nucleotide binding] 397945009072 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 397945009073 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 397945009074 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 397945009075 substrate binding site [chemical binding]; other site 397945009076 oxyanion hole (OAH) forming residues; other site 397945009077 trimer interface [polypeptide binding]; other site 397945009078 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 397945009079 Integral membrane protein TerC family; Region: TerC; cl10468 397945009080 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 397945009081 Transporter associated domain; Region: CorC_HlyC; cl08393 397945009082 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 397945009083 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 397945009084 G1 box; other site 397945009085 putative GEF interaction site [polypeptide binding]; other site 397945009086 GTP/Mg2+ binding site [chemical binding]; other site 397945009087 Switch I region; other site 397945009088 G2 box; other site 397945009089 G3 box; other site 397945009090 Switch II region; other site 397945009091 G4 box; other site 397945009092 G5 box; other site 397945009093 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 397945009094 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 397945009095 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 397945009096 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 specific...; Region: PseudoU_synth_EcTruB; cd02573 397945009097 RNA binding site [nucleotide binding]; other site 397945009098 active site 397945009099 Ribosome-binding factor A; Region: RBFA; cl00542 397945009100 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 397945009101 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 397945009102 translation initiation factor IF-2; Region: IF-2; TIGR00487 397945009103 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 397945009104 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 397945009105 G1 box; other site 397945009106 putative GEF interaction site [polypeptide binding]; other site 397945009107 GTP/Mg2+ binding site [chemical binding]; other site 397945009108 Switch I region; other site 397945009109 G2 box; other site 397945009110 G3 box; other site 397945009111 Switch II region; other site 397945009112 G4 box; other site 397945009113 G5 box; other site 397945009114 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 397945009115 Translation-initiation factor 2; Region: IF-2; pfam11987 397945009116 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 397945009117 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 397945009118 NusA N-terminal domain; Region: NusA_N; pfam08529 397945009119 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 397945009120 RNA binding site [nucleotide binding]; other site 397945009121 homodimer interface [polypeptide binding]; other site 397945009122 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 that...; Region: KH-I; cl00098 397945009123 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 397945009124 G-X-X-G motif; other site 397945009125 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 397945009126 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 397945009127 ribosome maturation protein RimP; Reviewed; Region: PRK00092 397945009128 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 397945009129 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 397945009130 Sm1 motif; other site 397945009131 D3 - B interaction site; other site 397945009132 D1 - D2 interaction site; other site 397945009133 Hfq - Hfq interaction site; other site 397945009134 RNA binding pocket [nucleotide binding]; other site 397945009135 Sm2 motif; other site 397945009136 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 397945009137 catalytic residues [active] 397945009138 Cytochrome c; Region: Cytochrom_C; cl11414 397945009139 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 397945009140 Cytochrome c; Region: Cytochrom_C; cl11414 397945009141 Cytochrome c; Region: Cytochrom_C; cl11414 397945009142 Cytochrome c; Region: Cytochrom_C; cl11414 397945009143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945009144 NMT1-like family; Region: NMT1_2; cl15260 397945009145 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 397945009146 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 397945009147 Helix-turn-helix domains; Region: HTH; cl00088 397945009148 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 397945009149 putative dimerization interface [polypeptide binding]; other site 397945009150 Helix-turn-helix domains; Region: HTH; cl00088 397945009151 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945009152 Integrase core domain; Region: rve; cl01316 397945009153 Integrase core domain; Region: rve_3; cl15866 397945009154 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 397945009155 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 397945009156 Cellulose binding domain; Region: CBM_2; cl02709 397945009157 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 397945009158 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 397945009159 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 397945009160 active site 397945009161 substrate binding site [chemical binding]; other site 397945009162 Mg2+ binding site [ion binding]; other site 397945009163 ornithine cyclodeaminase; Validated; Region: PRK07340 397945009164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009165 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 397945009166 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 397945009167 dimerization interface [polypeptide binding]; other site 397945009168 ligand binding site [chemical binding]; other site 397945009169 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 397945009170 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 397945009171 putative ATP binding site [chemical binding]; other site 397945009172 putative substrate interface [chemical binding]; other site 397945009173 Rice tungro bacilliform virus P46 protein; Region: RTBV_P46; pfam06216 397945009174 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 397945009175 Tetratricopeptide repeat; Region: TPR_6; pfam13174 397945009176 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 397945009177 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945009178 ligand binding site [chemical binding]; other site 397945009179 translocation protein TolB; Provisional; Region: tolB; PRK02889 397945009180 TolB amino-terminal domain; Region: TolB_N; cl00639 397945009181 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009182 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009183 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009184 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 397945009185 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 397945009186 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945009187 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 397945009188 Walker A/P-loop; other site 397945009189 ATP binding site [chemical binding]; other site 397945009190 Q-loop/lid; other site 397945009191 ABC transporter signature motif; other site 397945009192 Walker B; other site 397945009193 D-loop; other site 397945009194 H-loop/switch region; other site 397945009195 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 397945009196 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 397945009197 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 397945009198 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 397945009199 active site 397945009200 PilZ domain; Region: PilZ; cl01260 397945009201 DNA polymerase III subunit delta'; Validated; Region: PRK06964 397945009202 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009203 thymidylate kinase; Validated; Region: tmk; PRK00698 397945009204 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 397945009205 TMP-binding site; other site 397945009206 ATP-binding site [chemical binding]; other site 397945009207 YceG-like family; Region: YceG; pfam02618 397945009208 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 397945009209 dimerization interface [polypeptide binding]; other site 397945009210 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 397945009211 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 397945009212 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 397945009213 active site 397945009214 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945009215 Coenzyme A binding pocket [chemical binding]; other site 397945009216 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 397945009217 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 397945009218 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945009219 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 397945009220 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 397945009221 putative active site [active] 397945009222 metal binding site [ion binding]; metal-binding site 397945009223 HDOD domain; Region: HDOD; pfam08668 397945009224 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 397945009225 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 397945009226 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 397945009227 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 397945009228 RNA binding site [nucleotide binding]; other site 397945009229 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 397945009230 Helix-turn-helix domains; Region: HTH; cl00088 397945009231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945009232 Integrase core domain; Region: rve; cl01316 397945009233 Integrase core domain; Region: rve_3; cl15866 397945009234 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 397945009235 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 397945009236 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 397945009237 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009238 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 397945009239 thioredoxin reductase; Provisional; Region: PRK10262 397945009240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 397945009241 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 397945009242 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 397945009243 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 397945009244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945009245 DNA-binding site [nucleotide binding]; DNA binding site 397945009246 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 397945009247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945009248 homodimer interface [polypeptide binding]; other site 397945009249 catalytic residue [active] 397945009250 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 397945009251 Di-iron ligands [ion binding]; other site 397945009252 Transposase; Region: DDE_Tnp_ISL3; pfam01610 397945009253 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 397945009254 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; cl15754 397945009255 Pectate lyase; Region: Pec_lyase_C; cl01593 397945009256 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 397945009257 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 397945009258 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 397945009259 active site 397945009260 substrate binding site [chemical binding]; other site 397945009261 cosubstrate binding site; other site 397945009262 catalytic site [active] 397945009263 Protein of unknown function, DUF480; Region: DUF480; cl01209 397945009264 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 397945009265 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945009266 active site 397945009267 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 397945009268 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 397945009269 active site 397945009270 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 397945009271 Glyco_18 domain; Region: Glyco_18; smart00636 397945009272 active site 397945009273 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 397945009274 binding surface 397945009275 TPR motif; other site 397945009276 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 397945009277 binding surface 397945009278 TPR motif; other site 397945009279 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 397945009280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009281 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945009282 dimer interface [polypeptide binding]; other site 397945009283 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 397945009284 putative CheW interface [polypeptide binding]; other site 397945009285 DctM-like transporters; Region: DctM; pfam06808 397945009286 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945009287 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945009288 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945009289 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945009290 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 397945009291 active site 397945009292 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 397945009293 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 397945009294 active site 397945009295 Riboflavin kinase; Region: Flavokinase; cl03312 397945009296 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 397945009297 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945009298 active site 397945009299 HIGH motif; other site 397945009300 nucleotide binding site [chemical binding]; other site 397945009301 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 397945009302 active site 397945009303 KMSKS motif; other site 397945009304 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 397945009305 tRNA binding surface [nucleotide binding]; other site 397945009306 anticodon binding site; other site 397945009307 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 397945009308 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 397945009309 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945009310 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945009311 DNA binding site [nucleotide binding] 397945009312 domain linker motif; other site 397945009313 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 397945009314 putative dimerization interface [polypeptide binding]; other site 397945009315 putative ligand binding site [chemical binding]; other site 397945009316 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 397945009317 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 397945009318 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 397945009319 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 397945009320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945009321 dimer interface [polypeptide binding]; other site 397945009322 conserved gate region; other site 397945009323 putative PBP binding loops; other site 397945009324 ABC-ATPase subunit interface; other site 397945009325 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009326 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 397945009327 Walker A/P-loop; other site 397945009328 ATP binding site [chemical binding]; other site 397945009329 Q-loop/lid; other site 397945009330 ABC transporter signature motif; other site 397945009331 Walker B; other site 397945009332 D-loop; other site 397945009333 H-loop/switch region; other site 397945009334 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 397945009335 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 397945009336 active site 397945009337 metal binding site [ion binding]; metal-binding site 397945009338 hexamer interface [polypeptide binding]; other site 397945009339 Transposase domain (DUF772); Region: DUF772; cl15789 397945009340 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 397945009341 Transposase domain (DUF772); Region: DUF772; cl15789 397945009342 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 397945009343 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 397945009344 PhoU domain; Region: PhoU; pfam01895 397945009345 PhoU domain; Region: PhoU; pfam01895 397945009346 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 397945009347 Helix-turn-helix domains; Region: HTH; cl00088 397945009348 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 397945009349 dimerization interface [polypeptide binding]; other site 397945009350 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 397945009351 Membrane transport protein; Region: Mem_trans; cl09117 397945009352 Flavin Reductases; Region: FlaRed; cl00801 397945009353 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 397945009354 nudix motif; other site 397945009355 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 397945009356 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 397945009357 NADP binding site [chemical binding]; other site 397945009358 dimer interface [polypeptide binding]; other site 397945009359 EamA-like transporter family; Region: EamA; cl01037 397945009360 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 397945009361 EamA-like transporter family; Region: EamA; cl01037 397945009362 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 397945009363 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945009364 RHS Repeat; Region: RHS_repeat; cl11982 397945009365 RHS protein; Region: RHS; pfam03527 397945009366 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945009367 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 397945009368 PAAR motif; Region: PAAR_motif; cl15808 397945009369 RHS Repeat; Region: RHS_repeat; cl11982 397945009370 RHS Repeat; Region: RHS_repeat; cl11982 397945009371 RHS Repeat; Region: RHS_repeat; cl11982 397945009372 RHS Repeat; Region: RHS_repeat; cl11982 397945009373 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945009374 RHS Repeat; Region: RHS_repeat; cl11982 397945009375 RHS Repeat; Region: RHS_repeat; cl11982 397945009376 RHS Repeat; Region: RHS_repeat; cl11982 397945009377 RHS Repeat; Region: RHS_repeat; cl11982 397945009378 RHS protein; Region: RHS; pfam03527 397945009379 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945009380 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 397945009381 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 397945009382 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 397945009383 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945009384 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945009385 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945009386 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945009387 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 397945009388 PAS fold; Region: PAS_7; pfam12860 397945009389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945009390 metal binding site [ion binding]; metal-binding site 397945009391 active site 397945009392 I-site; other site 397945009393 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 397945009394 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945009395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 397945009396 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 397945009397 putative active site [active] 397945009398 putative metal binding site [ion binding]; other site 397945009399 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 397945009400 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 397945009401 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 397945009402 active site 397945009403 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 397945009404 MFS transport protein AraJ; Provisional; Region: PRK10091 397945009405 putative substrate translocation pore; other site 397945009406 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 397945009407 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 397945009408 motif II; other site 397945009409 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 397945009410 DNA-binding site [nucleotide binding]; DNA binding site 397945009411 RNA-binding motif; other site 397945009412 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 397945009413 cyclase homology domain; Region: CHD; cd07302 397945009414 nucleotidyl binding site; other site 397945009415 metal binding site [ion binding]; metal-binding site 397945009416 dimer interface [polypeptide binding]; other site 397945009417 PilZ domain; Region: PilZ; cl01260 397945009418 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 397945009419 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 397945009420 Walker A/P-loop; other site 397945009421 ATP binding site [chemical binding]; other site 397945009422 Q-loop/lid; other site 397945009423 ABC transporter signature motif; other site 397945009424 Walker B; other site 397945009425 D-loop; other site 397945009426 H-loop/switch region; other site 397945009427 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 397945009428 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 397945009429 Walker A/P-loop; other site 397945009430 ATP binding site [chemical binding]; other site 397945009431 Q-loop/lid; other site 397945009432 ABC transporter signature motif; other site 397945009433 Walker B; other site 397945009434 D-loop; other site 397945009435 H-loop/switch region; other site 397945009436 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 397945009437 TM-ABC transporter signature motif; other site 397945009438 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 397945009439 TM-ABC transporter signature motif; other site 397945009440 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945009441 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 397945009442 putative ligand binding site [chemical binding]; other site 397945009443 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 397945009444 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 397945009445 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 397945009446 YceI-like domain; Region: YceI; cl01001 397945009447 YceI-like domain; Region: YceI; cl01001 397945009448 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 397945009449 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 397945009450 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945009451 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945009452 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 397945009453 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 397945009454 carboxyltransferase (CT) interaction site; other site 397945009455 biotinylation site [posttranslational modification]; other site 397945009456 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 397945009457 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 397945009458 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 397945009459 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 397945009460 LamB/YcsF family; Region: LamB_YcsF; cl00664 397945009461 benzoate transport; Region: 2A0115; TIGR00895 397945009462 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 397945009463 putative substrate translocation pore; other site 397945009464 Transcriptional regulators [Transcription]; Region: GntR; COG1802 397945009465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945009466 DNA-binding site [nucleotide binding]; DNA binding site 397945009467 FCD domain; Region: FCD; cl11656 397945009468 Chemotaxis phosphatase CheX; Region: CheX; cl15816 397945009469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009470 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 397945009471 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945009472 dimer interface [polypeptide binding]; other site 397945009473 phosphorylation site [posttranslational modification] 397945009474 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 397945009475 ATP binding site [chemical binding]; other site 397945009476 Mg2+ binding site [ion binding]; other site 397945009477 G-X-G motif; other site 397945009478 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 397945009479 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 397945009480 phosphate binding site [ion binding]; other site 397945009481 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 397945009482 Sodium:solute symporter family; Region: SSF; cl00456 397945009483 CHASE4 domain; Region: CHASE4; cl01308 397945009484 PAS domain S-box; Region: sensory_box; TIGR00229 397945009485 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 397945009486 putative active site [active] 397945009487 heme pocket [chemical binding]; other site 397945009488 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945009489 metal binding site [ion binding]; metal-binding site 397945009490 active site 397945009491 I-site; other site 397945009492 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 397945009493 Response regulator receiver domain; Region: Response_reg; pfam00072 397945009494 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 397945009495 active site 397945009496 phosphorylation site [posttranslational modification] 397945009497 intermolecular recognition site; other site 397945009498 dimerization interface [polypeptide binding]; other site 397945009499 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945009500 DNA binding residues [nucleotide binding] 397945009501 dimerization interface [polypeptide binding]; other site 397945009502 Sodium:solute symporter family; Region: SSF; cl00456 397945009503 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945009504 dimer interface [polypeptide binding]; other site 397945009505 phosphorylation site [posttranslational modification] 397945009506 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 397945009507 ATP binding site [chemical binding]; other site 397945009508 Mg2+ binding site [ion binding]; other site 397945009509 G-X-G motif; other site 397945009510 Response regulator receiver domain; Region: Response_reg; pfam00072 397945009511 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 397945009512 active site 397945009513 phosphorylation site [posttranslational modification] 397945009514 intermolecular recognition site; other site 397945009515 dimerization interface [polypeptide binding]; other site 397945009516 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 397945009517 alpha-gamma subunit interface [polypeptide binding]; other site 397945009518 beta-gamma subunit interface [polypeptide binding]; other site 397945009519 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 397945009520 gamma-beta subunit interface [polypeptide binding]; other site 397945009521 alpha-beta subunit interface [polypeptide binding]; other site 397945009522 urease subunit alpha; Reviewed; Region: ureC; PRK13207 397945009523 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 397945009524 subunit interactions [polypeptide binding]; other site 397945009525 active site 397945009526 flap region; other site 397945009527 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 397945009528 dimer interface [polypeptide binding]; other site 397945009529 catalytic residues [active] 397945009530 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 397945009531 UreF; Region: UreF; pfam01730 397945009532 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009533 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 397945009534 active site 397945009535 catalytic triad [active] 397945009536 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1223 397945009537 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945009538 Walker A motif; other site 397945009539 ATP binding site [chemical binding]; other site 397945009540 Walker B motif; other site 397945009541 arginine finger; other site 397945009542 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945009543 Helix-turn-helix domains; Region: HTH; cl00088 397945009544 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945009545 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 397945009546 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 397945009547 ATP binding site [chemical binding]; other site 397945009548 Mg2+ binding site [ion binding]; other site 397945009549 G-X-G motif; other site 397945009550 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 397945009551 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 397945009552 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945009553 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 397945009554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009555 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 397945009556 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 397945009557 active site 397945009558 phosphorylation site [posttranslational modification] 397945009559 intermolecular recognition site; other site 397945009560 dimerization interface [polypeptide binding]; other site 397945009561 CheB methylesterase; Region: CheB_methylest; pfam01339 397945009562 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 397945009563 Type II transport protein GspH; Region: GspH; pfam12019 397945009564 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 397945009565 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 397945009566 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 397945009567 PilX N-terminal; Region: PilX_N; pfam14341 397945009568 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 397945009569 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 397945009570 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 397945009571 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 397945009572 catalytic motif [active] 397945009573 Zn binding site [ion binding]; other site 397945009574 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 397945009575 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 397945009576 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 397945009577 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 397945009578 Subunit I/III interface [polypeptide binding]; other site 397945009579 D-pathway; other site 397945009580 Subunit I/VIIc interface [polypeptide binding]; other site 397945009581 Subunit I/IV interface [polypeptide binding]; other site 397945009582 Subunit I/II interface [polypeptide binding]; other site 397945009583 Low-spin heme (heme a) binding site [chemical binding]; other site 397945009584 Subunit I/VIIa interface [polypeptide binding]; other site 397945009585 Subunit I/VIa interface [polypeptide binding]; other site 397945009586 Dimer interface; other site 397945009587 Putative water exit pathway; other site 397945009588 Binuclear center (heme a3/CuB) [ion binding]; other site 397945009589 K-pathway; other site 397945009590 Subunit I/Vb interface [polypeptide binding]; other site 397945009591 Putative proton exit pathway; other site 397945009592 Subunit I/VIb interface; other site 397945009593 Subunit I/VIc interface [polypeptide binding]; other site 397945009594 Electron transfer pathway; other site 397945009595 Subunit I/VIIIb interface [polypeptide binding]; other site 397945009596 Subunit I/VIIb interface [polypeptide binding]; other site 397945009597 Domain of unknown function (DUF305); Region: DUF305; cl15795 397945009598 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 397945009599 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 397945009600 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 397945009601 catalytic triad [active] 397945009602 conserved cis-peptide bond; other site 397945009603 Protein of unknown function (DUF421); Region: DUF421; cl00990 397945009604 histidine kinase; Provisional; Region: PRK13557 397945009605 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 397945009606 putative active site [active] 397945009607 heme pocket [chemical binding]; other site 397945009608 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945009609 dimer interface [polypeptide binding]; other site 397945009610 phosphorylation site [posttranslational modification] 397945009611 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 397945009612 ATP binding site [chemical binding]; other site 397945009613 Mg2+ binding site [ion binding]; other site 397945009614 G-X-G motif; other site 397945009615 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 397945009616 active site 397945009617 phosphorylation site [posttranslational modification] 397945009618 intermolecular recognition site; other site 397945009619 dimerization interface [polypeptide binding]; other site 397945009620 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 397945009621 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 397945009622 S-adenosylmethionine binding site [chemical binding]; other site 397945009623 Phospholipid methyltransferase; Region: PEMT; cl00763 397945009624 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 397945009625 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 397945009626 Cupin domain; Region: Cupin_2; cl09118 397945009627 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 397945009628 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945009629 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945009630 DNA binding residues [nucleotide binding] 397945009631 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 397945009632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009633 Uncharacterized conserved protein [Function unknown]; Region: COG3496 397945009634 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 397945009635 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 397945009636 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 397945009637 S-adenosylmethionine binding site [chemical binding]; other site 397945009638 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 397945009639 classical (c) SDRs; Region: SDR_c; cd05233 397945009640 NAD(P) binding site [chemical binding]; other site 397945009641 active site 397945009642 Sporulation related domain; Region: SPOR; cl10051 397945009643 Potato inhibitor I family; Region: potato_inhibit; cl15459 397945009644 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 397945009645 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 397945009646 FeS/SAM binding site; other site 397945009647 HemN C-terminal domain; Region: HemN_C; pfam06969 397945009648 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 397945009649 active site 397945009650 dimerization interface [polypeptide binding]; other site 397945009651 ribonuclease PH; Reviewed; Region: rph; PRK00173 397945009652 Ribonuclease PH; Region: RNase_PH_bact; cd11362 397945009653 hexamer interface [polypeptide binding]; other site 397945009654 active site 397945009655 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; cd00143 397945009656 Protein phosphatase 2C; Region: PP2C; pfam00481 397945009657 active site 397945009658 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 397945009659 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945009660 active site 397945009661 ATP binding site [chemical binding]; other site 397945009662 substrate binding site [chemical binding]; other site 397945009663 activation loop (A-loop); other site 397945009664 hypothetical protein; Provisional; Region: PRK11820 397945009665 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 397945009666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009667 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 397945009668 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 397945009669 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 397945009670 catalytic site [active] 397945009671 G-X2-G-X-G-K; other site 397945009672 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 397945009673 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 397945009674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 397945009675 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 397945009676 synthetase active site [active] 397945009677 NTP binding site [chemical binding]; other site 397945009678 metal binding site [ion binding]; metal-binding site 397945009679 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 397945009680 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 397945009681 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 397945009682 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 397945009683 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945009684 Predicted transcriptional regulator [Transcription]; Region: COG2932 397945009685 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945009686 Catalytic site [active] 397945009687 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 397945009688 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945009689 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 397945009690 active site 397945009691 phosphorylation site [posttranslational modification] 397945009692 intermolecular recognition site; other site 397945009693 dimerization interface [polypeptide binding]; other site 397945009694 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945009695 DNA binding residues [nucleotide binding] 397945009696 dimerization interface [polypeptide binding]; other site 397945009697 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 397945009698 Helix-turn-helix domains; Region: HTH; cl00088 397945009699 HrcA protein C terminal domain; Region: HrcA; pfam01628 397945009700 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 397945009701 catalytic residues [active] 397945009702 catalytic nucleophile [active] 397945009703 Presynaptic Site I dimer interface [polypeptide binding]; other site 397945009704 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 397945009705 Synaptic Flat tetramer interface [polypeptide binding]; other site 397945009706 Synaptic Site I dimer interface [polypeptide binding]; other site 397945009707 DNA binding site [nucleotide binding] 397945009708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009709 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 397945009710 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 397945009711 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 397945009712 Walker A/P-loop; other site 397945009713 ATP binding site [chemical binding]; other site 397945009714 Q-loop/lid; other site 397945009715 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 397945009716 ABC transporter signature motif; other site 397945009717 Walker B; other site 397945009718 D-loop; other site 397945009719 H-loop/switch region; other site 397945009720 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 397945009721 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 397945009722 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 397945009723 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 397945009724 minor groove reading motif; other site 397945009725 helix-hairpin-helix signature motif; other site 397945009726 substrate binding pocket [chemical binding]; other site 397945009727 active site 397945009728 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 397945009729 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 397945009730 DNA binding and oxoG recognition site [nucleotide binding] 397945009731 Dynamin family; Region: Dynamin_N; pfam00350 397945009732 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009733 G1 box; other site 397945009734 GTP/Mg2+ binding site [chemical binding]; other site 397945009735 G2 box; other site 397945009736 Switch I region; other site 397945009737 G3 box; other site 397945009738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945009739 G3 box; other site 397945009740 Switch II region; other site 397945009741 GTP/Mg2+ binding site [chemical binding]; other site 397945009742 G4 box; other site 397945009743 G5 box; other site 397945009744 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 397945009745 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 397945009746 DNA binding site [nucleotide binding] 397945009747 catalytic residue [active] 397945009748 H2TH interface [polypeptide binding]; other site 397945009749 putative catalytic residues [active] 397945009750 turnover-facilitating residue; other site 397945009751 intercalation triad [nucleotide binding]; other site 397945009752 8OG recognition residue [nucleotide binding]; other site 397945009753 putative reading head residues; other site 397945009754 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 397945009755 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 397945009756 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 397945009757 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 397945009758 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 397945009759 binding surface 397945009760 TPR motif; other site 397945009761 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 397945009762 binding surface 397945009763 TPR motif; other site 397945009764 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 397945009765 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 397945009766 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 397945009767 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 397945009768 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 397945009769 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 397945009770 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945009771 active site 397945009772 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 397945009773 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 397945009774 5S rRNA interface [nucleotide binding]; other site 397945009775 CTC domain interface [polypeptide binding]; other site 397945009776 L16 interface [polypeptide binding]; other site 397945009777 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 397945009778 putative active site [active] 397945009779 catalytic residue [active] 397945009780 hypothetical protein; Provisional; Region: PRK13795 397945009781 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 397945009782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945009783 dimer interface [polypeptide binding]; other site 397945009784 conserved gate region; other site 397945009785 putative PBP binding loops; other site 397945009786 ABC-ATPase subunit interface; other site 397945009787 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 397945009788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945009789 dimer interface [polypeptide binding]; other site 397945009790 conserved gate region; other site 397945009791 putative PBP binding loops; other site 397945009792 ABC-ATPase subunit interface; other site 397945009793 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 397945009794 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 397945009795 Walker A/P-loop; other site 397945009796 ATP binding site [chemical binding]; other site 397945009797 Q-loop/lid; other site 397945009798 ABC transporter signature motif; other site 397945009799 Walker B; other site 397945009800 D-loop; other site 397945009801 H-loop/switch region; other site 397945009802 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945009803 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 397945009804 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 397945009805 Walker A/P-loop; other site 397945009806 ATP binding site [chemical binding]; other site 397945009807 Q-loop/lid; other site 397945009808 ABC transporter signature motif; other site 397945009809 Walker B; other site 397945009810 D-loop; other site 397945009811 H-loop/switch region; other site 397945009812 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945009813 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_6; cd08494 397945009814 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 397945009815 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 397945009816 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 397945009817 active site 397945009818 tetramer interface [polypeptide binding]; other site 397945009819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945009820 NMT1-like family; Region: NMT1_2; cl15260 397945009821 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945009822 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945009823 DNA binding site [nucleotide binding] 397945009824 domain linker motif; other site 397945009825 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 397945009826 putative dimerization interface [polypeptide binding]; other site 397945009827 putative ligand binding site [chemical binding]; other site 397945009828 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 397945009829 active site 397945009830 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 397945009831 Sensors of blue-light using FAD; Region: BLUF; cl04855 397945009832 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 397945009833 active site 397945009834 PLD-like domain; Region: PLDc_2; pfam13091 397945009835 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 397945009836 putative active site [active] 397945009837 catalytic site [active] 397945009838 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945009839 PLD-like domain; Region: PLDc_2; pfam13091 397945009840 putative active site [active] 397945009841 catalytic site [active] 397945009842 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 397945009843 putative catalytic site [active] 397945009844 putative metal binding site [ion binding]; other site 397945009845 putative phosphate binding site [ion binding]; other site 397945009846 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 397945009847 Response regulator receiver domain; Region: Response_reg; pfam00072 397945009848 active site 397945009849 phosphorylation site [posttranslational modification] 397945009850 intermolecular recognition site; other site 397945009851 dimerization interface [polypeptide binding]; other site 397945009852 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 397945009853 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 397945009854 binding surface 397945009855 TPR motif; other site 397945009856 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 397945009857 nudix motif; other site 397945009858 TolB amino-terminal domain; Region: TolB_N; cl00639 397945009859 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 397945009860 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 397945009861 dimer interface [polypeptide binding]; other site 397945009862 anticodon binding site; other site 397945009863 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 397945009864 homodimer interface [polypeptide binding]; other site 397945009865 motif 1; other site 397945009866 active site 397945009867 motif 2; other site 397945009868 GAD domain; Region: GAD; pfam02938 397945009869 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 397945009870 motif 3; other site 397945009871 Protein of unknown function (DUF502); Region: DUF502; cl01107 397945009872 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 397945009873 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 397945009874 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 397945009875 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945009876 SCP-2 sterol transfer family; Region: SCP2; cl01225 397945009877 Tim44-like domain; Region: Tim44; cl09208 397945009878 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 397945009879 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 397945009880 S-adenosylmethionine binding site [chemical binding]; other site 397945009881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009882 Protein of unknown function (DUF971); Region: DUF971; cl01414 397945009883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945009884 metal binding site [ion binding]; metal-binding site 397945009885 active site 397945009886 I-site; other site 397945009887 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 397945009888 HIT family signature motif; other site 397945009889 catalytic residue [active] 397945009890 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 397945009891 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945009892 FAD binding domain; Region: FAD_binding_4; pfam01565 397945009893 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 397945009894 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 397945009895 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 397945009896 Cysteine-rich domain; Region: CCG; pfam02754 397945009897 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 397945009898 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 397945009899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009900 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 397945009901 L-serine binding site [chemical binding]; other site 397945009902 ACT domain interface; other site 397945009903 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 397945009904 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945009905 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 397945009906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945009907 dimer interface [polypeptide binding]; other site 397945009908 conserved gate region; other site 397945009909 putative PBP binding loops; other site 397945009910 ABC-ATPase subunit interface; other site 397945009911 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 397945009912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945009913 dimer interface [polypeptide binding]; other site 397945009914 conserved gate region; other site 397945009915 putative PBP binding loops; other site 397945009916 ABC-ATPase subunit interface; other site 397945009917 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 397945009918 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 397945009919 Walker A/P-loop; other site 397945009920 ATP binding site [chemical binding]; other site 397945009921 Q-loop/lid; other site 397945009922 ABC transporter signature motif; other site 397945009923 Walker B; other site 397945009924 D-loop; other site 397945009925 H-loop/switch region; other site 397945009926 TOBE domain; Region: TOBE_2; cl01440 397945009927 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 397945009928 dimer interface [polypeptide binding]; other site 397945009929 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945009930 ligand binding site [chemical binding]; other site 397945009931 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 397945009932 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 397945009933 putative active site [active] 397945009934 catalytic site [active] 397945009935 putative metal binding site [ion binding]; other site 397945009936 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 397945009937 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 397945009938 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945009939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945009940 NMT1-like family; Region: NMT1_2; cl15260 397945009941 Helix-turn-helix domains; Region: HTH; cl00088 397945009942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945009943 Integrase core domain; Region: rve; cl01316 397945009944 Integrase core domain; Region: rve_3; cl15866 397945009945 Helix-turn-helix domains; Region: HTH; cl00088 397945009946 Integrase core domain; Region: rve; cl01316 397945009947 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945009948 Integrase core domain; Region: rve_3; cl15866 397945009949 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 397945009950 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 397945009951 tRNA; other site 397945009952 putative tRNA binding site [nucleotide binding]; other site 397945009953 putative NADP binding site [chemical binding]; other site 397945009954 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 397945009955 peptide chain release factor 1; Validated; Region: prfA; PRK00591 397945009956 RF-1 domain; Region: RF-1; cl02875 397945009957 RF-1 domain; Region: RF-1; cl02875 397945009958 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 397945009959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945009960 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 397945009961 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945009962 Walker A motif; other site 397945009963 ATP binding site [chemical binding]; other site 397945009964 Walker B motif; other site 397945009965 arginine finger; other site 397945009966 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 397945009967 Domain of unknown function DUF21; Region: DUF21; pfam01595 397945009968 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 397945009969 Transporter associated domain; Region: CorC_HlyC; cl08393 397945009970 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 397945009971 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945009972 catalytic residue [active] 397945009973 prolyl-tRNA synthetase; Provisional; Region: PRK09194 397945009974 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 397945009975 dimer interface [polypeptide binding]; other site 397945009976 motif 1; other site 397945009977 active site 397945009978 motif 2; other site 397945009979 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 397945009980 putative deacylase active site [active] 397945009981 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 397945009982 active site 397945009983 motif 3; other site 397945009984 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 397945009985 anticodon binding site; other site 397945009986 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 397945009987 putative active site [active] 397945009988 Ap4A binding site [chemical binding]; other site 397945009989 nudix motif; other site 397945009990 putative metal binding site [ion binding]; other site 397945009991 gamma-glutamyl kinase; Provisional; Region: PRK05429 397945009992 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 397945009993 nucleotide binding site [chemical binding]; other site 397945009994 homotetrameric interface [polypeptide binding]; other site 397945009995 putative phosphate binding site [ion binding]; other site 397945009996 putative allosteric binding site; other site 397945009997 PUA domain; Region: PUA; cl00607 397945009998 GTPase CgtA; Reviewed; Region: obgE; PRK12299 397945009999 GTP1/OBG; Region: GTP1_OBG; pfam01018 397945010000 Obg GTPase; Region: Obg; cd01898 397945010001 G1 box; other site 397945010002 GTP/Mg2+ binding site [chemical binding]; other site 397945010003 Switch I region; other site 397945010004 G2 box; other site 397945010005 G3 box; other site 397945010006 Switch II region; other site 397945010007 G4 box; other site 397945010008 G5 box; other site 397945010009 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 397945010010 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 397945010011 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 397945010012 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 397945010013 substrate binding pocket [chemical binding]; other site 397945010014 chain length determination region; other site 397945010015 substrate-Mg2+ binding site; other site 397945010016 catalytic residues [active] 397945010017 aspartate-rich region 1; other site 397945010018 active site lid residues [active] 397945010019 aspartate-rich region 2; other site 397945010020 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 397945010021 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 397945010022 metal binding site [ion binding]; metal-binding site 397945010023 putative dimer interface [polypeptide binding]; other site 397945010024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945010025 NMT1-like family; Region: NMT1_2; cl15260 397945010026 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945010027 Helix-turn-helix domains; Region: HTH; cl00088 397945010028 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945010029 dimerization interface [polypeptide binding]; other site 397945010030 substrate binding pocket [chemical binding]; other site 397945010031 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 397945010032 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 397945010033 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945010034 Walker A motif; other site 397945010035 ATP binding site [chemical binding]; other site 397945010036 Walker B motif; other site 397945010037 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 397945010038 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945010039 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945010040 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 397945010041 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 397945010042 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 397945010043 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 397945010044 CoA-binding site [chemical binding]; other site 397945010045 ATP-binding [chemical binding]; other site 397945010046 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 397945010047 Domain of unknown function (DUF329); Region: DUF329; cl01144 397945010048 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 397945010049 active site 397945010050 8-oxo-dGMP binding site [chemical binding]; other site 397945010051 nudix motif; other site 397945010052 metal binding site [ion binding]; metal-binding site 397945010053 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 397945010054 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945010055 Walker A motif; other site 397945010056 ATP binding site [chemical binding]; other site 397945010057 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 397945010058 heterotetramer interface [polypeptide binding]; other site 397945010059 active site pocket [active] 397945010060 cleavage site 397945010061 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 397945010062 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 397945010063 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 397945010064 nucleotide binding region [chemical binding]; other site 397945010065 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 397945010066 SEC-C motif; Region: SEC-C; pfam02810 397945010067 Peptidase family M23; Region: Peptidase_M23; pfam01551 397945010068 Stringent starvation protein B; Region: SspB; cl01120 397945010069 stringent starvation protein A; Provisional; Region: sspA; PRK09481 397945010070 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 397945010071 C-terminal domain interface [polypeptide binding]; other site 397945010072 putative GSH binding site (G-site) [chemical binding]; other site 397945010073 dimer interface [polypeptide binding]; other site 397945010074 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 397945010075 dimer interface [polypeptide binding]; other site 397945010076 N-terminal domain interface [polypeptide binding]; other site 397945010077 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 397945010078 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 397945010079 Qi binding site; other site 397945010080 intrachain domain interface; other site 397945010081 interchain domain interface [polypeptide binding]; other site 397945010082 cytochrome b; Provisional; Region: CYTB; MTH00145 397945010083 heme bH binding site [chemical binding]; other site 397945010084 heme bL binding site [chemical binding]; other site 397945010085 Qo binding site; other site 397945010086 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 397945010087 interchain domain interface [polypeptide binding]; other site 397945010088 intrachain domain interface; other site 397945010089 Qi binding site; other site 397945010090 Qo binding site; other site 397945010091 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 397945010092 [2Fe-2S] cluster binding site [ion binding]; other site 397945010093 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 397945010094 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 397945010095 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 397945010096 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 397945010097 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 397945010098 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 397945010099 Walker A/P-loop; other site 397945010100 ATP binding site [chemical binding]; other site 397945010101 Q-loop/lid; other site 397945010102 ABC transporter signature motif; other site 397945010103 Walker B; other site 397945010104 D-loop; other site 397945010105 H-loop/switch region; other site 397945010106 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 397945010107 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 397945010108 FtsX-like permease family; Region: FtsX; cl15850 397945010109 Sulfatase; Region: Sulfatase; cl10460 397945010110 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 397945010111 DHH family; Region: DHH; pfam01368 397945010112 DHHA1 domain; Region: DHHA1; pfam02272 397945010113 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 397945010114 S-adenosylmethionine binding site [chemical binding]; other site 397945010115 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 397945010116 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 397945010117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945010118 homodimer interface [polypeptide binding]; other site 397945010119 catalytic residue [active] 397945010120 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 397945010121 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 397945010122 putative substrate translocation pore; other site 397945010123 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 397945010124 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 397945010125 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 397945010126 active site 397945010127 putative substrate binding region [chemical binding]; other site 397945010128 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 397945010129 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 397945010130 active site 397945010131 HIGH motif; other site 397945010132 dimer interface [polypeptide binding]; other site 397945010133 KMSKS motif; other site 397945010134 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 397945010135 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010136 RHS Repeat; Region: RHS_repeat; cl11982 397945010137 RHS Repeat; Region: RHS_repeat; cl11982 397945010138 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010139 RHS Repeat; Region: RHS_repeat; cl11982 397945010140 RHS protein; Region: RHS; pfam03527 397945010141 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945010143 AAA domain; Region: AAA_18; pfam13238 397945010144 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 397945010145 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 397945010146 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 397945010147 inhibitor-cofactor binding pocket; inhibition site 397945010148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945010149 catalytic residue [active] 397945010150 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 397945010151 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 397945010152 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 397945010153 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 397945010154 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 397945010155 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 397945010156 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945010157 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 397945010158 Walker A/P-loop; other site 397945010159 ATP binding site [chemical binding]; other site 397945010160 Q-loop/lid; other site 397945010161 ABC transporter signature motif; other site 397945010162 Walker B; other site 397945010163 D-loop; other site 397945010164 H-loop/switch region; other site 397945010165 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 397945010166 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 397945010167 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 397945010168 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 397945010169 catalytic site [active] 397945010170 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 397945010171 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 397945010172 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 397945010173 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 397945010174 N-terminal plug; other site 397945010175 ligand-binding site [chemical binding]; other site 397945010176 peptide synthase; Provisional; Region: PRK12467 397945010177 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010178 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010179 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010180 Thioesterase domain; Region: Thioesterase; pfam00975 397945010181 peptide synthase; Provisional; Region: PRK12467 397945010182 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010183 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010184 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010185 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010186 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 397945010187 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010188 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010189 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010190 Condensation domain; Region: Condensation; pfam00668 397945010191 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 397945010192 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010193 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010194 acyl-CoA synthetase; Validated; Region: PRK08308 397945010195 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010196 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 397945010197 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 397945010198 active site 397945010199 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 397945010200 Acyl transferase domain; Region: Acyl_transf_1; cl08282 397945010201 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 397945010202 putative NADP binding site [chemical binding]; other site 397945010203 active site 397945010204 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010205 acyl-CoA synthetase; Validated; Region: PRK05850 397945010206 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010207 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010208 Condensation domain; Region: Condensation; pfam00668 397945010209 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 397945010210 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 397945010211 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010212 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 397945010213 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010214 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 397945010215 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 397945010216 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 397945010217 MbtH-like protein; Region: MbtH; cl01279 397945010218 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 397945010219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945010220 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945010221 DNA binding residues [nucleotide binding] 397945010222 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 397945010223 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 397945010224 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 397945010225 DNA-K related protein; Region: DUF3731; pfam12531 397945010226 Protein of unknown function DUF43; Region: DUF43; pfam01861 397945010227 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945010228 AAA domain; Region: AAA_18; pfam13238 397945010229 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 397945010230 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 397945010231 Cl- selectivity filter; other site 397945010232 Cl- binding residues [ion binding]; other site 397945010233 pore gating glutamate residue; other site 397945010234 dimer interface [polypeptide binding]; other site 397945010235 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010236 RHS Repeat; Region: RHS_repeat; cl11982 397945010237 RHS Repeat; Region: RHS_repeat; cl11982 397945010238 RHS Repeat; Region: RHS_repeat; cl11982 397945010239 RHS Repeat; Region: RHS_repeat; cl11982 397945010240 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010241 RHS protein; Region: RHS; pfam03527 397945010242 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010243 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945010244 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945010245 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945010246 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945010247 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 397945010248 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 397945010249 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 397945010250 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 397945010251 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945010252 dimer interface [polypeptide binding]; other site 397945010253 conserved gate region; other site 397945010254 putative PBP binding loops; other site 397945010255 ABC-ATPase subunit interface; other site 397945010256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945010257 dimer interface [polypeptide binding]; other site 397945010258 conserved gate region; other site 397945010259 putative PBP binding loops; other site 397945010260 ABC-ATPase subunit interface; other site 397945010261 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945010262 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945010263 substrate binding pocket [chemical binding]; other site 397945010264 membrane-bound complex binding site; other site 397945010265 hinge residues; other site 397945010266 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 397945010267 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945010268 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 397945010269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945010270 Dehydratase family; Region: ILVD_EDD; cl00340 397945010271 PAS domain S-box; Region: sensory_box; TIGR00229 397945010272 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 397945010273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945010274 metal binding site [ion binding]; metal-binding site 397945010275 active site 397945010276 I-site; other site 397945010277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945010278 metal binding site [ion binding]; metal-binding site 397945010279 active site 397945010280 I-site; other site 397945010281 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 397945010282 Helix-turn-helix domains; Region: HTH; cl00088 397945010283 Integrase core domain; Region: rve; cl01316 397945010284 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945010285 Integrase core domain; Region: rve_3; cl15866 397945010286 Transposase domain (DUF772); Region: DUF772; cl15789 397945010287 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945010288 Transposase domain (DUF772); Region: DUF772; cl15789 397945010289 Transposase domain (DUF772); Region: DUF772; cl15789 397945010290 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945010291 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 397945010292 putative metal binding site [ion binding]; other site 397945010293 seryl-tRNA synthetase; Provisional; Region: PRK05431 397945010294 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 397945010295 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 397945010296 dimer interface [polypeptide binding]; other site 397945010297 active site 397945010298 motif 1; other site 397945010299 motif 2; other site 397945010300 motif 3; other site 397945010301 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 397945010302 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 397945010303 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945010304 catalytic residue [active] 397945010305 inosine-5'-monophosphate dehydrogenase; Region: IMP_dehydrog; TIGR01302 397945010306 FOG: CBS domain [General function prediction only]; Region: COG0517 397945010307 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 397945010308 Domain of unknown function DUF21; Region: DUF21; pfam01595 397945010309 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 397945010310 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 397945010311 Transporter associated domain; Region: CorC_HlyC; cl08393 397945010312 LytB protein; Region: LYTB; cl00507 397945010313 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 397945010314 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 397945010315 hypothetical protein; Reviewed; Region: PRK00024 397945010316 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 397945010317 MPN+ (JAMM) motif; other site 397945010318 Zinc-binding site [ion binding]; other site 397945010319 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 397945010320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 397945010321 Cupin domain; Region: Cupin_2; cl09118 397945010322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 397945010323 Smr domain; Region: Smr; cl02619 397945010324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945010325 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 397945010326 ATP binding site [chemical binding]; other site 397945010327 Mg2+ binding site [ion binding]; other site 397945010328 G-X-G motif; other site 397945010329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945010330 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 397945010331 active site 397945010332 phosphorylation site [posttranslational modification] 397945010333 intermolecular recognition site; other site 397945010334 dimerization interface [polypeptide binding]; other site 397945010335 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945010336 DNA binding site [nucleotide binding] 397945010337 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 397945010338 Predicted membrane protein [Function unknown]; Region: COG3212 397945010339 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 397945010340 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 397945010341 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 397945010342 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 397945010343 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 397945010344 active site 397945010345 metal binding site [ion binding]; metal-binding site 397945010346 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 397945010347 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945010348 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945010349 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945010350 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945010351 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 397945010352 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 397945010353 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010354 RHS Repeat; Region: RHS_repeat; cl11982 397945010355 RHS Repeat; Region: RHS_repeat; cl11982 397945010356 RHS Repeat; Region: RHS_repeat; cl11982 397945010357 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945010358 RHS Repeat; Region: RHS_repeat; cl11982 397945010359 RHS Repeat; Region: RHS_repeat; cl11982 397945010360 RHS Repeat; Region: RHS_repeat; cl11982 397945010361 RHS Repeat; Region: RHS_repeat; cl11982 397945010362 RHS Repeat; Region: RHS_repeat; cl11982 397945010363 RHS protein; Region: RHS; pfam03527 397945010364 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010365 Transposase domain (DUF772); Region: DUF772; cl15789 397945010366 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945010367 Transposase domain (DUF772); Region: DUF772; cl15789 397945010368 Helix-turn-helix domains; Region: HTH; cl00088 397945010369 Integrase core domain; Region: rve; cl01316 397945010370 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945010371 Integrase core domain; Region: rve_3; cl15866 397945010372 RHS protein; Region: RHS; pfam03527 397945010373 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945010374 RHS Repeat; Region: RHS_repeat; cl11982 397945010375 RHS Repeat; Region: RHS_repeat; cl11982 397945010376 RHS Repeat; Region: RHS_repeat; cl11982 397945010377 RHS Repeat; Region: RHS_repeat; cl11982 397945010378 RHS Repeat; Region: RHS_repeat; cl11982 397945010379 RHS Repeat; Region: RHS_repeat; cl11982 397945010380 RHS Repeat; Region: RHS_repeat; cl11982 397945010381 Helix-turn-helix domains; Region: HTH; cl00088 397945010382 Integrase core domain; Region: rve; cl01316 397945010383 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945010384 Integrase core domain; Region: rve_3; cl15866 397945010385 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945010386 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 397945010387 active site 397945010388 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 397945010389 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 397945010390 active site 397945010391 MatE; Region: MatE; cl10513 397945010392 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 397945010393 AMP-binding enzyme; Region: AMP-binding; cl15778 397945010394 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 397945010395 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 397945010396 dimer interface [polypeptide binding]; other site 397945010397 active site 397945010398 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945010399 catalytic residues [active] 397945010400 substrate binding site [chemical binding]; other site 397945010401 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945010402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 397945010403 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 397945010404 active site 397945010405 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 397945010406 active site 397945010407 Autoinducer binding domain; Region: Autoind_bind; pfam03472 397945010408 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945010409 DNA binding residues [nucleotide binding] 397945010410 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945010411 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945010412 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 397945010413 active site 397945010414 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945010415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945010416 DNA-binding site [nucleotide binding]; DNA binding site 397945010417 FCD domain; Region: FCD; cl11656 397945010418 Amino acid synthesis; Region: AA_synth; pfam06684 397945010419 putative amidase; Provisional; Region: PRK06169 397945010420 Amidase; Region: Amidase; cl11426 397945010421 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945010422 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 397945010423 ligand binding site [chemical binding]; other site 397945010424 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945010425 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 397945010426 Walker A/P-loop; other site 397945010427 ATP binding site [chemical binding]; other site 397945010428 Q-loop/lid; other site 397945010429 ABC transporter signature motif; other site 397945010430 Walker B; other site 397945010431 D-loop; other site 397945010432 H-loop/switch region; other site 397945010433 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 397945010434 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 397945010435 Walker A/P-loop; other site 397945010436 ATP binding site [chemical binding]; other site 397945010437 Q-loop/lid; other site 397945010438 ABC transporter signature motif; other site 397945010439 Walker B; other site 397945010440 D-loop; other site 397945010441 H-loop/switch region; other site 397945010442 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 397945010443 TM-ABC transporter signature motif; other site 397945010444 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 397945010445 TM-ABC transporter signature motif; other site 397945010446 putative amidase; Provisional; Region: PRK06169 397945010447 Amidase; Region: Amidase; cl11426 397945010448 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 397945010449 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945010450 tetrameric interface [polypeptide binding]; other site 397945010451 NAD binding site [chemical binding]; other site 397945010452 catalytic residues [active] 397945010453 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945010454 Helix-turn-helix domains; Region: HTH; cl00088 397945010455 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 397945010456 putative effector binding pocket; other site 397945010457 dimerization interface [polypeptide binding]; other site 397945010458 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 397945010459 FtsX-like permease family; Region: FtsX; cl15850 397945010460 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 397945010461 TRAP binding interface [polypeptide binding]; other site 397945010462 Zn binding site [ion binding]; other site 397945010463 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 397945010464 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 397945010465 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 397945010466 putative molybdopterin cofactor binding site [chemical binding]; other site 397945010467 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 397945010468 putative molybdopterin cofactor binding site; other site 397945010469 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945010470 dimerization interface [polypeptide binding]; other site 397945010471 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945010472 dimer interface [polypeptide binding]; other site 397945010473 putative CheW interface [polypeptide binding]; other site 397945010474 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 397945010475 Domain of unknown function DUF59; Region: DUF59; cl00941 397945010476 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 397945010477 Walker A motif; other site 397945010478 Restriction endonuclease; Region: Mrr_cat; cl00516 397945010479 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 397945010480 active site 397945010481 nucleophile elbow; other site 397945010482 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 397945010483 pyruvate dehydrogenase; Provisional; Region: PRK09124 397945010484 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 397945010485 PYR/PP interface [polypeptide binding]; other site 397945010486 tetramer interface [polypeptide binding]; other site 397945010487 dimer interface [polypeptide binding]; other site 397945010488 TPP binding site [chemical binding]; other site 397945010489 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 397945010490 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 397945010491 TPP-binding site [chemical binding]; other site 397945010492 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 397945010493 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 397945010494 active site 397945010495 HIGH motif; other site 397945010496 KMSKS motif; other site 397945010497 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 397945010498 tRNA binding surface [nucleotide binding]; other site 397945010499 anticodon binding site; other site 397945010500 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 397945010501 dimer interface [polypeptide binding]; other site 397945010502 putative tRNA-binding site [nucleotide binding]; other site 397945010503 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 397945010504 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 397945010505 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 397945010506 ScpA/B protein; Region: ScpA_ScpB; cl00598 397945010507 L-aspartate oxidase; Provisional; Region: PRK09077 397945010508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945010509 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 397945010510 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 397945010511 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 397945010512 inhibitor-cofactor binding pocket; inhibition site 397945010513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945010514 catalytic residue [active] 397945010515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945010516 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 397945010517 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 397945010518 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945010519 catalytic residue [active] 397945010520 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 397945010521 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 397945010522 FeS/SAM binding site; other site 397945010523 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 397945010524 active site 397945010525 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 397945010526 putative substrate binding pocket [chemical binding]; other site 397945010527 trimer interface [polypeptide binding]; other site 397945010528 aminodeoxychorismate synthase; Provisional; Region: PRK07508 397945010529 chorismate binding enzyme; Region: Chorismate_bind; cl10555 397945010530 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 397945010531 substrate-cofactor binding pocket; other site 397945010532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945010533 Quinolinate synthetase A protein; Region: NadA; cl00420 397945010534 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 397945010535 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 397945010536 dimerization interface [polypeptide binding]; other site 397945010537 active site 397945010538 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 397945010539 oligomerization interface [polypeptide binding]; other site 397945010540 active site 397945010541 metal binding site [ion binding]; metal-binding site 397945010542 Pantoate-beta-alanine ligase; Region: PanC; cd00560 397945010543 pantoate--beta-alanine ligase; Region: panC; TIGR00018 397945010544 active site 397945010545 ATP-binding site [chemical binding]; other site 397945010546 pantoate-binding site; other site 397945010547 HXXH motif; other site 397945010548 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 397945010549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945010550 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 397945010551 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 397945010552 SecA binding site; other site 397945010553 Preprotein binding site; other site 397945010554 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 397945010555 GSH binding site [chemical binding]; other site 397945010556 catalytic residues [active] 397945010557 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 397945010558 active site residue [active] 397945010559 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 397945010560 catalytic core [active] 397945010561 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 397945010562 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 397945010563 C-terminal peptidase (prc); Region: prc; TIGR00225 397945010564 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 397945010565 protein binding site [polypeptide binding]; other site 397945010566 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 397945010567 Catalytic dyad [active] 397945010568 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 397945010569 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 397945010570 ATP binding site [chemical binding]; other site 397945010571 substrate interface [chemical binding]; other site 397945010572 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 397945010573 Response regulator receiver domain; Region: Response_reg; pfam00072 397945010574 active site 397945010575 phosphorylation site [posttranslational modification] 397945010576 intermolecular recognition site; other site 397945010577 dimerization interface [polypeptide binding]; other site 397945010578 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945010579 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 397945010580 active site 397945010581 phosphorylation site [posttranslational modification] 397945010582 intermolecular recognition site; other site 397945010583 dimerization interface [polypeptide binding]; other site 397945010584 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945010585 DNA binding residues [nucleotide binding] 397945010586 dimerization interface [polypeptide binding]; other site 397945010587 CHASE3 domain; Region: CHASE3; cl05000 397945010588 Histidine kinase; Region: HisKA_3; pfam07730 397945010589 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 397945010590 ATP binding site [chemical binding]; other site 397945010591 Mg2+ binding site [ion binding]; other site 397945010592 G-X-G motif; other site 397945010593 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 397945010594 Ferritin-like domain; Region: Ferritin; pfam00210 397945010595 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 397945010596 dinuclear metal binding motif [ion binding]; other site 397945010597 BON domain; Region: BON; cl02771 397945010598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 397945010599 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 397945010600 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 397945010601 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 397945010602 active site 397945010603 (T/H)XGH motif; other site 397945010604 magnesium protoporphyrin O-methyltransferase; Region: BchM-ChlM; TIGR02021 397945010605 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 397945010606 S-adenosylmethionine binding site [chemical binding]; other site 397945010607 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 397945010608 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 397945010609 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 397945010610 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 397945010611 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 397945010612 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 397945010613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945010614 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945010615 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 397945010616 short chain dehydrogenase; Validated; Region: PRK07069 397945010617 NAD binding site [chemical binding]; other site 397945010618 homotetramer interface [polypeptide binding]; other site 397945010619 homodimer interface [polypeptide binding]; other site 397945010620 active site 397945010621 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 397945010622 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 397945010623 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945010624 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945010625 dimerization interface [polypeptide binding]; other site 397945010626 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945010627 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945010628 dimer interface [polypeptide binding]; other site 397945010629 putative CheW interface [polypeptide binding]; other site 397945010630 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 397945010631 conserved cys residue [active] 397945010632 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 397945010633 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945010634 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 397945010635 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 397945010636 conserved cys residue [active] 397945010637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945010638 NMT1-like family; Region: NMT1_2; cl15260 397945010639 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 397945010640 MatE; Region: MatE; cl10513 397945010641 MatE; Region: MatE; cl10513 397945010642 MarC family integral membrane protein; Region: MarC; cl00919 397945010643 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 397945010644 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 397945010645 tetramer interface [polypeptide binding]; other site 397945010646 active site 397945010647 Mg2+/Mn2+ binding site [ion binding]; other site 397945010648 aspartate aminotransferase; Provisional; Region: PRK05764 397945010649 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 397945010650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945010651 homodimer interface [polypeptide binding]; other site 397945010652 catalytic residue [active] 397945010653 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 397945010654 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945010655 dimer interface [polypeptide binding]; other site 397945010656 conserved gate region; other site 397945010657 putative PBP binding loops; other site 397945010658 ABC-ATPase subunit interface; other site 397945010659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945010660 dimer interface [polypeptide binding]; other site 397945010661 conserved gate region; other site 397945010662 putative PBP binding loops; other site 397945010663 ABC-ATPase subunit interface; other site 397945010664 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 397945010665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945010666 Walker A/P-loop; other site 397945010667 ATP binding site [chemical binding]; other site 397945010668 Q-loop/lid; other site 397945010669 ABC transporter signature motif; other site 397945010670 Walker B; other site 397945010671 D-loop; other site 397945010672 H-loop/switch region; other site 397945010673 TOBE domain; Region: TOBE_2; cl01440 397945010674 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 397945010675 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 397945010676 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945010677 Helix-turn-helix domains; Region: HTH; cl00088 397945010678 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 397945010679 dimerization interface [polypeptide binding]; other site 397945010680 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 397945010681 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 397945010682 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945010683 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945010684 DNA binding residues [nucleotide binding] 397945010685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945010686 NMT1-like family; Region: NMT1_2; cl15260 397945010687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945010688 NAD(P) binding site [chemical binding]; other site 397945010689 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 397945010690 ligand binding site [chemical binding]; other site 397945010691 Helix-turn-helix domains; Region: HTH; cl00088 397945010692 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 397945010693 Cu(I) binding site [ion binding]; other site 397945010694 UbiA prenyltransferase family; Region: UbiA; cl00337 397945010695 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 397945010696 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 397945010697 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 397945010698 Subunit III/VIIa interface [polypeptide binding]; other site 397945010699 Phospholipid binding site [chemical binding]; other site 397945010700 Subunit I/III interface [polypeptide binding]; other site 397945010701 Subunit III/VIb interface [polypeptide binding]; other site 397945010702 Subunit III/VIa interface; other site 397945010703 Subunit III/Vb interface [polypeptide binding]; other site 397945010704 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 397945010705 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 397945010706 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 397945010707 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 397945010708 Subunit I/III interface [polypeptide binding]; other site 397945010709 D-pathway; other site 397945010710 Subunit I/VIIc interface [polypeptide binding]; other site 397945010711 Subunit I/IV interface [polypeptide binding]; other site 397945010712 Subunit I/II interface [polypeptide binding]; other site 397945010713 Low-spin heme (heme a) binding site [chemical binding]; other site 397945010714 Subunit I/VIIa interface [polypeptide binding]; other site 397945010715 Subunit I/VIa interface [polypeptide binding]; other site 397945010716 Dimer interface; other site 397945010717 Putative water exit pathway; other site 397945010718 Binuclear center (heme a3/CuB) [ion binding]; other site 397945010719 K-pathway; other site 397945010720 Subunit I/Vb interface [polypeptide binding]; other site 397945010721 Putative proton exit pathway; other site 397945010722 Subunit I/VIb interface; other site 397945010723 Subunit I/VIc interface [polypeptide binding]; other site 397945010724 Electron transfer pathway; other site 397945010725 Subunit I/VIIIb interface [polypeptide binding]; other site 397945010726 Subunit I/VIIb interface [polypeptide binding]; other site 397945010727 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 397945010728 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 397945010729 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 397945010730 Cytochrome c; Region: Cytochrom_C; cl11414 397945010731 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; cl15754 397945010732 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 397945010733 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 397945010734 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 397945010735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945010736 Helix-turn-helix domains; Region: HTH; cl00088 397945010737 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 397945010738 putative effector binding pocket; other site 397945010739 dimerization interface [polypeptide binding]; other site 397945010740 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 397945010741 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 397945010742 putative active site [active] 397945010743 putative catalytic site [active] 397945010744 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 397945010745 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945010746 P-loop; other site 397945010747 Magnesium ion binding site [ion binding]; other site 397945010748 LysE type translocator; Region: LysE; cl00565 397945010749 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 397945010750 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 397945010751 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 397945010752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945010753 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 397945010754 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 397945010755 N-terminal plug; other site 397945010756 ligand-binding site [chemical binding]; other site 397945010757 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945010758 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945010759 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945010760 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 397945010761 Helix-turn-helix domains; Region: HTH; cl00088 397945010762 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945010763 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 397945010764 putative active site [active] 397945010765 heme pocket [chemical binding]; other site 397945010766 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945010767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945010768 dimer interface [polypeptide binding]; other site 397945010769 putative CheW interface [polypeptide binding]; other site 397945010770 benzoate transport; Region: 2A0115; TIGR00895 397945010771 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 397945010772 putative substrate translocation pore; other site 397945010773 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 397945010774 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 397945010775 Cytochrome c; Region: Cytochrom_C; cl11414 397945010776 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 397945010777 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 397945010778 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 397945010779 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 397945010780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945010781 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 397945010782 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945010783 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 397945010784 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 397945010785 Isochorismatase family; Region: Isochorismatase; pfam00857 397945010786 substrate binding site [chemical binding]; other site 397945010787 catalytic triad [active] 397945010788 domain interfaces; other site 397945010789 conserved cis-peptide bond; other site 397945010790 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945010791 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 397945010792 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 397945010793 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945010794 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945010795 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 397945010796 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 397945010797 XdhC Rossmann domain; Region: XdhC_C; pfam13478 397945010798 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945010799 Helix-turn-helix domains; Region: HTH; cl00088 397945010800 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 397945010801 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 397945010802 NADP binding site [chemical binding]; other site 397945010803 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 397945010804 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 397945010805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945010806 NMT1-like family; Region: NMT1_2; cl15260 397945010807 Muconolactone delta-isomerase; Region: MIase; cl01992 397945010808 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945010809 short chain dehydrogenase; Provisional; Region: PRK06523 397945010810 classical (c) SDRs; Region: SDR_c; cd05233 397945010811 NAD(P) binding site [chemical binding]; other site 397945010812 active site 397945010813 YCII-related domain; Region: YCII; cl00999 397945010814 Putative cyclase; Region: Cyclase; cl00814 397945010815 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 397945010816 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 397945010817 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 397945010818 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 397945010819 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 397945010820 dimer interface [polypeptide binding]; other site 397945010821 active site 397945010822 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 397945010823 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 397945010824 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 397945010825 Helix-turn-helix domains; Region: HTH; cl00088 397945010826 Bacterial transcriptional regulator; Region: IclR; pfam01614 397945010827 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 397945010828 Cytochrome c; Region: Cytochrom_C; cl11414 397945010829 Cytochrome c; Region: Cytochrom_C; cl11414 397945010830 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 397945010831 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945010832 Walker A motif; other site 397945010833 ATP binding site [chemical binding]; other site 397945010834 Walker B motif; other site 397945010835 arginine finger; other site 397945010836 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945010837 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 397945010838 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 397945010839 Surface antigen; Region: Bac_surface_Ag; cl03097 397945010840 Family of unknown function (DUF490); Region: DUF490; pfam04357 397945010841 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 397945010842 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 397945010843 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945010844 putative active site [active] 397945010845 catalytic site [active] 397945010846 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_2; cd09162 397945010847 putative active site [active] 397945010848 catalytic site [active] 397945010849 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 397945010850 sensor protein QseC; Provisional; Region: PRK10337 397945010851 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 397945010852 ATP binding site [chemical binding]; other site 397945010853 Mg2+ binding site [ion binding]; other site 397945010854 G-X-G motif; other site 397945010855 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 397945010856 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 397945010857 active site 397945010858 phosphorylation site [posttranslational modification] 397945010859 intermolecular recognition site; other site 397945010860 dimerization interface [polypeptide binding]; other site 397945010861 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945010862 DNA binding site [nucleotide binding] 397945010863 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 397945010864 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 397945010865 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 397945010866 protein binding site [polypeptide binding]; other site 397945010867 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 397945010868 protein binding site [polypeptide binding]; other site 397945010869 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 397945010870 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945010871 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 397945010872 dimer interface [polypeptide binding]; other site 397945010873 active site 397945010874 metal binding site [ion binding]; metal-binding site 397945010875 glutathione binding site [chemical binding]; other site 397945010876 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 397945010877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945010878 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 397945010879 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945010880 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 397945010881 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 397945010882 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 397945010883 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 397945010884 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 397945010885 general secretion pathway protein F; Region: GspF; TIGR02120 397945010886 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945010887 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945010888 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 397945010889 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 to...; Region: EFh; cd00051 397945010890 Ca2+ binding site [ion binding]; other site 397945010891 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 397945010892 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 397945010893 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945010894 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 397945010895 Walker A/P-loop; other site 397945010896 ATP binding site [chemical binding]; other site 397945010897 Q-loop/lid; other site 397945010898 ABC transporter signature motif; other site 397945010899 Walker B; other site 397945010900 D-loop; other site 397945010901 H-loop/switch region; other site 397945010902 cyanophycin synthetase; Provisional; Region: PRK14016 397945010903 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945010904 cyanophycin synthetase; Provisional; Region: PRK14016 397945010905 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945010906 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 397945010907 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 397945010908 CreA protein; Region: CreA; pfam05981 397945010909 Helix-turn-helix domains; Region: HTH; cl00088 397945010910 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 397945010911 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 397945010912 dimerization interface [polypeptide binding]; other site 397945010913 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945010914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945010915 NMT1-like family; Region: NMT1_2; cl15260 397945010916 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 397945010917 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 397945010918 catalytic residues [active] 397945010919 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 397945010920 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 397945010921 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 397945010922 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 397945010923 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 397945010924 heme binding pocket [chemical binding]; other site 397945010925 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 397945010926 domain interactions; other site 397945010927 Response regulator receiver domain; Region: Response_reg; pfam00072 397945010928 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 397945010929 active site 397945010930 phosphorylation site [posttranslational modification] 397945010931 intermolecular recognition site; other site 397945010932 dimerization interface [polypeptide binding]; other site 397945010933 Response regulator receiver domain; Region: Response_reg; pfam00072 397945010934 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 397945010935 active site 397945010936 phosphorylation site [posttranslational modification] 397945010937 intermolecular recognition site; other site 397945010938 dimerization interface [polypeptide binding]; other site 397945010939 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945010940 dimer interface [polypeptide binding]; other site 397945010941 phosphorylation site [posttranslational modification] 397945010942 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 397945010943 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 397945010944 ATP binding site [chemical binding]; other site 397945010945 Mg2+ binding site [ion binding]; other site 397945010946 G-X-G motif; other site 397945010947 CheB methylesterase; Region: CheB_methylest; pfam01339 397945010948 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 397945010949 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945010950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945010951 CHASE3 domain; Region: CHASE3; cl05000 397945010952 GAF domain; Region: GAF_2; pfam13185 397945010953 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 397945010954 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945010955 dimer interface [polypeptide binding]; other site 397945010956 phosphorylation site [posttranslational modification] 397945010957 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 397945010958 ATP binding site [chemical binding]; other site 397945010959 Mg2+ binding site [ion binding]; other site 397945010960 G-X-G motif; other site 397945010961 Response regulator receiver domain; Region: Response_reg; pfam00072 397945010962 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 397945010963 active site 397945010964 phosphorylation site [posttranslational modification] 397945010965 intermolecular recognition site; other site 397945010966 dimerization interface [polypeptide binding]; other site 397945010967 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 397945010968 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 397945010969 active site 397945010970 phosphorylation site [posttranslational modification] 397945010971 intermolecular recognition site; other site 397945010972 dimerization interface [polypeptide binding]; other site 397945010973 Response regulator receiver domain; Region: Response_reg; pfam00072 397945010974 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 397945010975 active site 397945010976 phosphorylation site [posttranslational modification] 397945010977 intermolecular recognition site; other site 397945010978 dimerization interface [polypeptide binding]; other site 397945010979 bZIP transcription factor; Region: bZIP_1; cl02576 397945010980 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 397945010981 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945010982 metal binding site [ion binding]; metal-binding site 397945010983 active site 397945010984 I-site; other site 397945010985 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945010986 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 397945010987 N-terminal plug; other site 397945010988 ligand-binding site [chemical binding]; other site 397945010989 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 397945010990 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 397945010991 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 397945010992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 397945010993 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 397945010994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945010995 Walker A/P-loop; other site 397945010996 ATP binding site [chemical binding]; other site 397945010997 Q-loop/lid; other site 397945010998 ABC transporter signature motif; other site 397945010999 Walker B; other site 397945011000 D-loop; other site 397945011001 H-loop/switch region; other site 397945011002 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 397945011003 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 397945011004 Walker A/P-loop; other site 397945011005 ATP binding site [chemical binding]; other site 397945011006 Q-loop/lid; other site 397945011007 ABC transporter signature motif; other site 397945011008 Walker B; other site 397945011009 D-loop; other site 397945011010 H-loop/switch region; other site 397945011011 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 397945011012 ATP binding site [chemical binding]; other site 397945011013 putative Mg++ binding site [ion binding]; other site 397945011014 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 397945011015 nucleotide binding region [chemical binding]; other site 397945011016 ATP-binding site [chemical binding]; other site 397945011017 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 397945011018 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 397945011019 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945011020 RHS Repeat; Region: RHS_repeat; cl11982 397945011021 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945011022 RHS Repeat; Region: RHS_repeat; cl11982 397945011023 RHS Repeat; Region: RHS_repeat; cl11982 397945011024 RHS Repeat; Region: RHS_repeat; cl11982 397945011025 RHS protein; Region: RHS; pfam03527 397945011026 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945011027 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 397945011028 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 397945011029 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 397945011030 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 397945011031 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 397945011032 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 397945011033 XdhC Rossmann domain; Region: XdhC_C; pfam13478 397945011034 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 397945011035 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 397945011036 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 397945011037 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 397945011038 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 397945011039 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 397945011040 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 397945011041 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 397945011042 Ligand binding site; other site 397945011043 metal-binding site 397945011044 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945011045 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 397945011046 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 397945011047 NAD binding site [chemical binding]; other site 397945011048 catalytic Zn binding site [ion binding]; other site 397945011049 structural Zn binding site [ion binding]; other site 397945011050 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 397945011051 dimer interface [polypeptide binding]; other site 397945011052 FMN binding site [chemical binding]; other site 397945011053 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 397945011054 nudix motif; other site 397945011055 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 397945011056 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 397945011057 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 397945011058 active site 397945011059 metal binding site [ion binding]; metal-binding site 397945011060 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 397945011061 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 397945011062 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 397945011063 putative dimerization interface [polypeptide binding]; other site 397945011064 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 397945011065 Helix-turn-helix domains; Region: HTH; cl00088 397945011066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945011067 Integrase core domain; Region: rve; cl01316 397945011068 Integrase core domain; Region: rve_3; cl15866 397945011069 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 397945011070 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 397945011071 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 397945011072 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 397945011073 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 397945011074 Uncharacterized conserved protein [Function unknown]; Region: COG3025 397945011075 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 397945011076 putative active site [active] 397945011077 putative metal binding residues [ion binding]; other site 397945011078 signature motif; other site 397945011079 putative triphosphate binding site [ion binding]; other site 397945011080 CHAD domain; Region: CHAD; cl10506 397945011081 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 397945011082 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 397945011083 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 397945011084 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 397945011085 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 397945011086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945011087 Helix-turn-helix domains; Region: HTH; cl00088 397945011088 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 397945011089 dimerization interface [polypeptide binding]; other site 397945011090 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 397945011091 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 397945011092 glutaminase active site [active] 397945011093 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 397945011094 dimer interface [polypeptide binding]; other site 397945011095 active site 397945011096 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 397945011097 dimer interface [polypeptide binding]; other site 397945011098 active site 397945011099 Helix-turn-helix domains; Region: HTH; cl00088 397945011100 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945011101 dimer interface [polypeptide binding]; other site 397945011102 phosphorylation site [posttranslational modification] 397945011103 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 397945011104 ATP binding site [chemical binding]; other site 397945011105 Mg2+ binding site [ion binding]; other site 397945011106 G-X-G motif; other site 397945011107 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 397945011108 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 397945011109 Substrate binding site; other site 397945011110 Mg++ binding site; other site 397945011111 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 397945011112 active site 397945011113 substrate binding site [chemical binding]; other site 397945011114 CoA binding site [chemical binding]; other site 397945011115 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 397945011116 ligand binding site [chemical binding]; other site 397945011117 flexible hinge region; other site 397945011118 Helix-turn-helix domains; Region: HTH; cl00088 397945011119 Sensors of blue-light using FAD; Region: BLUF; cl04855 397945011120 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 397945011121 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 397945011122 Helix-turn-helix domains; Region: HTH; cl00088 397945011123 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945011124 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945011125 dimerization interface [polypeptide binding]; other site 397945011126 substrate binding pocket [chemical binding]; other site 397945011127 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 397945011128 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 397945011129 active site 397945011130 HIGH motif; other site 397945011131 dimer interface [polypeptide binding]; other site 397945011132 KMSKS motif; other site 397945011133 Peptidase family M23; Region: Peptidase_M23; pfam01551 397945011134 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 397945011135 putative transporter; Provisional; Region: PRK10504 397945011136 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 397945011137 putative substrate translocation pore; other site 397945011138 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 397945011139 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 397945011140 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 397945011141 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 397945011142 23S rRNA interface [nucleotide binding]; other site 397945011143 L3 interface [polypeptide binding]; other site 397945011144 Protein kinase domain; Region: Pkinase; pfam00069 397945011145 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945011146 active site 397945011147 ATP binding site [chemical binding]; other site 397945011148 substrate binding site [chemical binding]; other site 397945011149 activation loop (A-loop); other site 397945011150 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 397945011151 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 397945011152 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 397945011153 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 397945011154 FAD binding site [chemical binding]; other site 397945011155 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 397945011156 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; cl15754 397945011157 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; cl15754 397945011158 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 397945011159 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 397945011160 oligomerization interface [polypeptide binding]; other site 397945011161 active site 397945011162 NAD+ binding site [chemical binding]; other site 397945011163 OpgC protein; Region: OpgC_C; cl00792 397945011164 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 397945011165 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 397945011166 G1 box; other site 397945011167 putative GEF interaction site [polypeptide binding]; other site 397945011168 GTP/Mg2+ binding site [chemical binding]; other site 397945011169 Switch I region; other site 397945011170 G2 box; other site 397945011171 G3 box; other site 397945011172 Switch II region; other site 397945011173 G4 box; other site 397945011174 G5 box; other site 397945011175 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 to...; Region: Translation_Factor_II_like; cl02787 397945011176 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 397945011177 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 397945011178 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 397945011179 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 397945011180 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 397945011181 Ligand binding site; other site 397945011182 Putative Catalytic site; other site 397945011183 DXD motif; other site 397945011184 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 397945011185 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945011186 active site 397945011187 motif I; other site 397945011188 motif II; other site 397945011189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945011190 NMT1-like family; Region: NMT1_2; cl15260 397945011191 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 397945011192 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 397945011193 Walker A/P-loop; other site 397945011194 ATP binding site [chemical binding]; other site 397945011195 Q-loop/lid; other site 397945011196 ABC transporter signature motif; other site 397945011197 Walker B; other site 397945011198 D-loop; other site 397945011199 H-loop/switch region; other site 397945011200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945011201 dimer interface [polypeptide binding]; other site 397945011202 conserved gate region; other site 397945011203 putative PBP binding loops; other site 397945011204 ABC-ATPase subunit interface; other site 397945011205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 397945011206 dimer interface [polypeptide binding]; other site 397945011207 conserved gate region; other site 397945011208 putative PBP binding loops; other site 397945011209 ABC-ATPase subunit interface; other site 397945011210 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 397945011211 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945011212 substrate binding pocket [chemical binding]; other site 397945011213 membrane-bound complex binding site; other site 397945011214 hinge residues; other site 397945011215 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 397945011216 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945011217 substrate binding pocket [chemical binding]; other site 397945011218 membrane-bound complex binding site; other site 397945011219 hinge residues; other site 397945011220 cell density-dependent motility repressor; Provisional; Region: PRK10082 397945011221 Helix-turn-helix domains; Region: HTH; cl00088 397945011222 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 397945011223 dimerization interface [polypeptide binding]; other site 397945011224 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 397945011225 DctM-like transporters; Region: DctM; pfam06808 397945011226 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 397945011227 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 397945011228 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 397945011229 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 397945011230 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 397945011231 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 397945011232 Walker A/P-loop; other site 397945011233 ATP binding site [chemical binding]; other site 397945011234 Q-loop/lid; other site 397945011235 ABC transporter signature motif; other site 397945011236 Walker B; other site 397945011237 D-loop; other site 397945011238 H-loop/switch region; other site 397945011239 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 397945011240 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 397945011241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945011242 NMT1-like family; Region: NMT1_2; cl15260 397945011243 enoyl-CoA hydratase; Provisional; Region: PRK06688 397945011244 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 397945011245 substrate binding site [chemical binding]; other site 397945011246 oxyanion hole (OAH) forming residues; other site 397945011247 trimer interface [polypeptide binding]; other site 397945011248 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 397945011249 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 397945011250 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 397945011251 dimer interface [polypeptide binding]; other site 397945011252 active site 397945011253 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 397945011254 CoenzymeA binding site [chemical binding]; other site 397945011255 subunit interaction site [polypeptide binding]; other site 397945011256 PHB binding site; other site 397945011257 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 397945011258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011259 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945011260 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945011261 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 397945011262 substrate binding site [chemical binding]; other site 397945011263 fatty oxidation complex, alpha subunit FadJ; Region: FadJ; TIGR02440 397945011264 oxyanion hole (OAH) forming residues; other site 397945011265 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 397945011266 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 397945011267 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 397945011268 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945011269 active site 397945011270 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 397945011271 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945011272 Helix-turn-helix domains; Region: HTH; cl00088 397945011273 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 397945011274 Phage-related minor tail protein [Function unknown]; Region: COG5281 397945011275 tape measure domain; Region: tape_meas_nterm; TIGR02675 397945011276 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 397945011277 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 397945011278 P-loop; other site 397945011279 Magnesium ion binding site [ion binding]; other site 397945011280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945011281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011282 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 397945011283 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 397945011284 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 397945011285 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 397945011286 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 397945011287 catalytic residue [active] 397945011288 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 397945011289 non-specific DNA binding site [nucleotide binding]; other site 397945011290 salt bridge; other site 397945011291 sequence-specific DNA binding site [nucleotide binding]; other site 397945011292 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945011293 Catalytic site [active] 397945011294 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945011295 Helix-turn-helix domains; Region: HTH; cl00088 397945011296 putative transposase OrfB; Reviewed; Region: PHA02517 397945011297 HTH-like domain; Region: HTH_21; pfam13276 397945011298 Integrase core domain; Region: rve; cl01316 397945011299 Integrase core domain; Region: rve_3; cl15866 397945011300 Integrase core domain; Region: rve; cl01316 397945011301 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 397945011302 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 397945011303 AAA domain; Region: AAA_22; pfam13401 397945011304 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 397945011305 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 397945011306 Imelysin; Region: Peptidase_M75; cl09159 397945011307 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 397945011308 Mor transcription activator family; Region: Mor; cl02360 397945011309 division inhibitor protein; Provisional; Region: slmA; PRK09480 397945011310 Helix-turn-helix domains; Region: HTH; cl00088 397945011311 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 397945011312 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 397945011313 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 397945011314 Mg2+ binding site [ion binding]; other site 397945011315 G-X-G motif; other site 397945011316 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945011317 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 397945011318 active site 397945011319 phosphorylation site [posttranslational modification] 397945011320 intermolecular recognition site; other site 397945011321 dimerization interface [polypeptide binding]; other site 397945011322 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945011323 DNA binding site [nucleotide binding] 397945011324 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 397945011325 feedback inhibition sensing region; other site 397945011326 homohexameric interface [polypeptide binding]; other site 397945011327 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 397945011328 nucleotide binding site [chemical binding]; other site 397945011329 N-acetyl-L-glutamate binding site [chemical binding]; other site 397945011330 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 397945011331 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 397945011332 Mg++ binding site [ion binding]; other site 397945011333 putative catalytic motif [active] 397945011334 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 397945011335 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 397945011336 S-adenosylmethionine binding site [chemical binding]; other site 397945011337 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 397945011338 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 397945011339 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 397945011340 Probable Catalytic site; other site 397945011341 metal-binding site 397945011342 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 397945011343 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 397945011344 S-adenosylmethionine binding site [chemical binding]; other site 397945011345 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 397945011346 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 397945011347 Walker A/P-loop; other site 397945011348 ATP binding site [chemical binding]; other site 397945011349 Q-loop/lid; other site 397945011350 ABC transporter signature motif; other site 397945011351 Walker B; other site 397945011352 D-loop; other site 397945011353 H-loop/switch region; other site 397945011354 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 397945011355 putative carbohydrate binding site [chemical binding]; other site 397945011356 ABC-2 type transporter; Region: ABC2_membrane; cl11417 397945011357 PPIC-type PPIASE domain; Region: Rotamase; cl08278 397945011358 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 397945011359 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945011360 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945011361 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 397945011362 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 397945011363 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 397945011364 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 397945011365 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 397945011366 general secretion pathway protein J; Validated; Region: PRK08808 397945011367 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 397945011368 general secretion pathway protein I; Region: gspI; TIGR01707 397945011369 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 397945011370 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 397945011371 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 397945011372 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 397945011373 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945011374 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 397945011375 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 397945011376 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 397945011377 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 397945011378 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 397945011379 Walker A motif; other site 397945011380 ATP binding site [chemical binding]; other site 397945011381 Walker B motif; other site 397945011382 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 397945011383 Cupin domain; Region: Cupin_2; cl09118 397945011384 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 397945011385 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 397945011386 substrate binding site; other site 397945011387 tetramer interface; other site 397945011388 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 397945011389 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 397945011390 NADP binding site [chemical binding]; other site 397945011391 active site 397945011392 putative substrate binding site [chemical binding]; other site 397945011393 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 397945011394 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 397945011395 NAD binding site [chemical binding]; other site 397945011396 substrate binding site [chemical binding]; other site 397945011397 homodimer interface [polypeptide binding]; other site 397945011398 active site 397945011399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945011400 Helix-turn-helix domains; Region: HTH; cl00088 397945011401 Bacterial transcriptional repressor; Region: TetR; pfam13972 397945011402 Type III pantothenate kinase; Region: Pan_kinase; cl09130 397945011403 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 397945011404 BON domain; Region: BON; cl02771 397945011405 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; cd00118 397945011406 putative peptidoglycan binding site; other site 397945011407 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 397945011408 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 397945011409 active site residue [active] 397945011410 Protein of unknown function DUF45; Region: DUF45; cl00636 397945011411 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945011412 putative acyl-acceptor binding pocket; other site 397945011413 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 397945011414 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 397945011415 active site 397945011416 motif I; other site 397945011417 motif II; other site 397945011418 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 397945011419 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 397945011420 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 397945011421 dimer interface [polypeptide binding]; other site 397945011422 motif 1; other site 397945011423 active site 397945011424 motif 2; other site 397945011425 motif 3; other site 397945011426 Cytochrome c [Energy production and conversion]; Region: COG3258 397945011427 Cytochrome c; Region: Cytochrom_C; cl11414 397945011428 Cytochrome c; Region: Cytochrom_C; cl11414 397945011429 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 397945011430 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 397945011431 dimer interface [polypeptide binding]; other site 397945011432 active site 397945011433 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 397945011434 dimer interface [polypeptide binding]; other site 397945011435 active site 1 [active] 397945011436 active site 2 [active] 397945011437 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 397945011438 homodimer interface [polypeptide binding]; other site 397945011439 active site 397945011440 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945011441 Helix-turn-helix domains; Region: HTH; cl00088 397945011442 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 397945011443 dimerization interface [polypeptide binding]; other site 397945011444 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 397945011445 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 397945011446 putative active site [active] 397945011447 catalytic triad [active] 397945011448 putative dimer interface [polypeptide binding]; other site 397945011449 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 397945011450 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 397945011451 Transporter associated domain; Region: CorC_HlyC; cl08393 397945011452 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945011453 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945011454 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 397945011455 putative DNA binding site [nucleotide binding]; other site 397945011456 putative Zn2+ binding site [ion binding]; other site 397945011457 Helix-turn-helix domains; Region: HTH; cl00088 397945011458 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 397945011459 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 397945011460 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 397945011461 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 397945011462 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 397945011463 dimer interface [polypeptide binding]; other site 397945011464 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 397945011465 active site 397945011466 Fe binding site [ion binding]; other site 397945011467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945011468 NMT1-like family; Region: NMT1_2; cl15260 397945011469 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 397945011470 cofactor binding site; other site 397945011471 metal binding site [ion binding]; metal-binding site 397945011472 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 397945011473 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 397945011474 AMP-binding enzyme; Region: AMP-binding; cl15778 397945011475 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945011476 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 397945011477 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 397945011478 ligand binding site [chemical binding]; other site 397945011479 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 397945011480 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 397945011481 Walker A/P-loop; other site 397945011482 ATP binding site [chemical binding]; other site 397945011483 Q-loop/lid; other site 397945011484 ABC transporter signature motif; other site 397945011485 Walker B; other site 397945011486 D-loop; other site 397945011487 H-loop/switch region; other site 397945011488 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 397945011489 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 397945011490 TM-ABC transporter signature motif; other site 397945011491 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 397945011492 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945011493 DNA binding site [nucleotide binding] 397945011494 domain linker motif; other site 397945011495 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 397945011496 dimerization interface [polypeptide binding]; other site 397945011497 ligand binding site [chemical binding]; other site 397945011498 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 397945011499 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 397945011500 substrate binding site [chemical binding]; other site 397945011501 dimer interface [polypeptide binding]; other site 397945011502 ATP binding site [chemical binding]; other site 397945011503 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 397945011504 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945011505 lytic murein transglycosylase; Provisional; Region: PRK11619 397945011506 lytic murein transglycosylase; Provisional; Region: PRK11619 397945011507 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 397945011508 N-acetyl-D-glucosamine binding site [chemical binding]; other site 397945011509 catalytic residue [active] 397945011510 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 397945011511 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 397945011512 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 397945011513 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945011514 metal binding site [ion binding]; metal-binding site 397945011515 active site 397945011516 I-site; other site 397945011517 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 397945011518 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945011519 putative C-terminal domain interface [polypeptide binding]; other site 397945011520 putative GSH binding site (G-site) [chemical binding]; other site 397945011521 putative dimer interface [polypeptide binding]; other site 397945011522 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 397945011523 putative dimer interface [polypeptide binding]; other site 397945011524 putative substrate binding pocket (H-site) [chemical binding]; other site 397945011525 putative N-terminal domain interface [polypeptide binding]; other site 397945011526 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 397945011527 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 397945011528 active site 397945011529 NTP binding site [chemical binding]; other site 397945011530 metal binding triad [ion binding]; metal-binding site 397945011531 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 397945011532 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 397945011533 Zn2+ binding site [ion binding]; other site 397945011534 Mg2+ binding site [ion binding]; other site 397945011535 thioredoxin 2; Provisional; Region: PRK10996 397945011536 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 397945011537 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 397945011538 catalytic residues [active] 397945011539 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 397945011540 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 397945011541 active site 397945011542 motif I; other site 397945011543 motif II; other site 397945011544 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 397945011545 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 397945011546 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 397945011547 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 397945011548 active site 397945011549 homotetramer interface [polypeptide binding]; other site 397945011550 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 397945011551 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 397945011552 Cupin domain; Region: Cupin_2; cl09118 397945011553 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 397945011554 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 397945011555 active site 397945011556 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 397945011557 AMP-binding enzyme; Region: AMP-binding; cl15778 397945011558 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945011559 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945011560 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 397945011561 active site 397945011562 metal binding site [ion binding]; metal-binding site 397945011563 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 397945011564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945011565 Coenzyme A binding pocket [chemical binding]; other site 397945011566 Bacterial DNA topoisomerase I DNA-binding domain; Region: TOP1Ac; smart00437 397945011567 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 397945011568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011569 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 397945011570 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 397945011571 inhibitor-cofactor binding pocket; inhibition site 397945011572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945011573 catalytic residue [active] 397945011574 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 397945011575 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 397945011576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945011577 catalytic residue [active] 397945011578 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 397945011579 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 397945011580 substrate binding pocket [chemical binding]; other site 397945011581 membrane-bound complex binding site; other site 397945011582 hinge residues; other site 397945011583 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 397945011584 Uncharacterized conserved protein [Function unknown]; Region: COG1565 397945011585 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 397945011586 pteridine reductase; Provisional; Region: PRK09135 397945011587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011588 NAD(P) binding site [chemical binding]; other site 397945011589 active site 397945011590 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 397945011591 active site 397945011592 Protein of unknown function (DUF466); Region: DUF466; cl01082 397945011593 carbon starvation protein A; Provisional; Region: PRK15015 397945011594 Carbon starvation protein CstA; Region: CstA; pfam02554 397945011595 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 397945011596 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 397945011597 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 397945011598 active site 397945011599 phosphorylation site [posttranslational modification] 397945011600 intermolecular recognition site; other site 397945011601 dimerization interface [polypeptide binding]; other site 397945011602 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945011603 DNA binding residues [nucleotide binding] 397945011604 dimerization interface [polypeptide binding]; other site 397945011605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 397945011606 Cache domain; Region: Cache_2; cl07034 397945011607 Histidine kinase; Region: HisKA_3; pfam07730 397945011608 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 397945011609 ATP binding site [chemical binding]; other site 397945011610 Mg2+ binding site [ion binding]; other site 397945011611 G-X-G motif; other site 397945011612 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 397945011613 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 397945011614 Ligand Binding Site [chemical binding]; other site 397945011615 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 397945011616 catalytic core [active] 397945011617 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 397945011618 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 397945011619 dimer interface [polypeptide binding]; other site 397945011620 active site 397945011621 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 397945011622 substrate binding site [chemical binding]; other site 397945011623 catalytic residue [active] 397945011624 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 397945011625 Phage Tail Collar Domain; Region: Collar; pfam07484 397945011626 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 397945011627 Phage Tail Collar Domain; Region: Collar; pfam07484 397945011628 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 397945011629 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 397945011630 Walker A motif; other site 397945011631 ATP binding site [chemical binding]; other site 397945011632 Walker B motif; other site 397945011633 arginine finger; other site 397945011634 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 397945011635 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 397945011636 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 397945011637 RuvA N terminal domain; Region: RuvA_N; pfam01330 397945011638 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 397945011639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945011640 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 397945011641 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 397945011642 putative active site [active] 397945011643 dimerization interface [polypeptide binding]; other site 397945011644 putative tRNAtyr binding site [nucleotide binding]; other site 397945011645 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 397945011646 Cation efflux family; Region: Cation_efflux; cl00316 397945011647 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 397945011648 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 397945011649 ATP binding site [chemical binding]; other site 397945011650 Mg++ binding site [ion binding]; other site 397945011651 motif III; other site 397945011652 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 397945011653 nucleotide binding region [chemical binding]; other site 397945011654 ATP-binding site [chemical binding]; other site 397945011655 DbpA RNA binding domain; Region: DbpA; pfam03880 397945011656 AMP nucleosidase; Provisional; Region: PRK08292 397945011657 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 397945011658 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 397945011659 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945011660 metal binding site [ion binding]; metal-binding site 397945011661 active site 397945011662 I-site; other site 397945011663 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; cl02712 397945011664 amidase catalytic site [active] 397945011665 Zn binding residues [ion binding]; other site 397945011666 substrate binding site [chemical binding]; other site 397945011667 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 and...; Region: PTS_IIB_fructose; cd05569 397945011668 P-loop; other site 397945011669 active site 397945011670 phosphorylation site [posttranslational modification] 397945011671 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 and...; Region: PTS_IIB_fructose; cd05569 397945011672 P-loop; other site 397945011673 active site 397945011674 phosphorylation site [posttranslational modification] 397945011675 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 397945011676 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 397945011677 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; Region: ribokinase_pfkB_like; cl00192 397945011678 substrate binding site [chemical binding]; other site 397945011679 ATP binding site [chemical binding]; other site 397945011680 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 397945011681 active site 397945011682 phosphorylation site [posttranslational modification] 397945011683 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 397945011684 dimerization domain swap beta strand [polypeptide binding]; other site 397945011685 regulatory protein interface [polypeptide binding]; other site 397945011686 active site 397945011687 regulatory phosphorylation site [posttranslational modification]; other site 397945011688 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 397945011689 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 397945011690 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 397945011691 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 397945011692 Transcriptional regulators [Transcription]; Region: PurR; COG1609 397945011693 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 397945011694 DNA binding site [nucleotide binding] 397945011695 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 397945011696 putative dimerization interface [polypeptide binding]; other site 397945011697 putative ligand binding site [chemical binding]; other site 397945011698 Gram-negative bacterial tonB protein; Region: TonB; cl10048 397945011699 Gram-negative bacterial tonB protein; Region: TonB; cl10048 397945011700 Hsp70 protein; Region: HSP70; pfam00012 397945011701 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 397945011702 putative active site [active] 397945011703 putative catalytic triad [active] 397945011704 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 397945011705 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 397945011706 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945011707 nodulation ABC transporter NodI; Provisional; Region: PRK13537 397945011708 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 397945011709 Walker A/P-loop; other site 397945011710 ATP binding site [chemical binding]; other site 397945011711 Q-loop/lid; other site 397945011712 ABC transporter signature motif; other site 397945011713 Walker B; other site 397945011714 D-loop; other site 397945011715 H-loop/switch region; other site 397945011716 ABC-2 type transporter; Region: ABC2_membrane; cl11417 397945011717 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 397945011718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011719 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945011720 Transcriptional regulator [Transcription]; Region: IclR; COG1414 397945011721 Helix-turn-helix domains; Region: HTH; cl00088 397945011722 Flavin Reductases; Region: FlaRed; cl00801 397945011723 Transposase; Region: DEDD_Tnp_IS110; pfam01548 397945011724 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 397945011725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945011726 NMT1-like family; Region: NMT1_2; cl15260 397945011727 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 397945011728 homotrimer interaction site [polypeptide binding]; other site 397945011729 putative active site [active] 397945011730 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 397945011731 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 397945011732 active site 397945011733 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945011734 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 397945011735 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 397945011736 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 397945011737 Helix-turn-helix domains; Region: HTH; cl00088 397945011738 OsmC-like protein; Region: OsmC; cl00767 397945011739 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 397945011740 active site 397945011741 metal binding site [ion binding]; metal-binding site 397945011742 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 397945011743 Catalytic domain of Protein Kinases; Region: PKc; cd00180 397945011744 active site 397945011745 ATP binding site [chemical binding]; other site 397945011746 substrate binding site [chemical binding]; other site 397945011747 activation loop (A-loop); other site 397945011748 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 397945011749 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945011750 Phosphotransferase enzyme family; Region: APH; pfam01636 397945011751 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945011752 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 397945011753 active site 397945011754 phosphorylation site [posttranslational modification] 397945011755 intermolecular recognition site; other site 397945011756 dimerization interface [polypeptide binding]; other site 397945011757 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945011758 DNA binding site [nucleotide binding] 397945011759 Fibronectin type III-like domain; Region: Fn3-like; cl15273 397945011760 Fibronectin type III-like domain; Region: Fn3-like; cl15273 397945011761 Fibronectin type III-like domain; Region: Fn3-like; cl15273 397945011762 Fibronectin type III-like domain; Region: Fn3-like; cl15273 397945011763 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 397945011764 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945011765 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 397945011766 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945011767 dimer interface [polypeptide binding]; other site 397945011768 phosphorylation site [posttranslational modification] 397945011769 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 397945011770 ATP binding site [chemical binding]; other site 397945011771 Mg2+ binding site [ion binding]; other site 397945011772 G-X-G motif; other site 397945011773 Response regulator receiver domain; Region: Response_reg; pfam00072 397945011774 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 397945011775 active site 397945011776 phosphorylation site [posttranslational modification] 397945011777 intermolecular recognition site; other site 397945011778 dimerization interface [polypeptide binding]; other site 397945011779 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 397945011780 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 397945011781 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945011782 RHS Repeat; Region: RHS_repeat; cl11982 397945011783 RHS Repeat; Region: RHS_repeat; cl11982 397945011784 RHS Repeat; Region: RHS_repeat; cl11982 397945011785 RHS Repeat; Region: RHS_repeat; cl11982 397945011786 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 397945011787 RHS Repeat; Region: RHS_repeat; cl11982 397945011788 RHS protein; Region: RHS; pfam03527 397945011789 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 397945011790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011791 heat shock protein 90; Provisional; Region: PRK05218 397945011792 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 397945011793 ATP binding site [chemical binding]; other site 397945011794 Mg2+ binding site [ion binding]; other site 397945011795 G-X-G motif; other site 397945011796 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 397945011797 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 397945011798 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 397945011799 RNA binding surface [nucleotide binding]; other site 397945011800 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 397945011801 active site 397945011802 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 397945011803 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945011804 dimerization interface [polypeptide binding]; other site 397945011805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945011806 metal binding site [ion binding]; metal-binding site 397945011807 active site 397945011808 I-site; other site 397945011809 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 397945011810 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 397945011811 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945011812 dimerization interface [polypeptide binding]; other site 397945011813 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945011814 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945011815 dimer interface [polypeptide binding]; other site 397945011816 putative CheW interface [polypeptide binding]; other site 397945011817 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 397945011818 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 397945011819 ligand binding site [chemical binding]; other site 397945011820 flexible hinge region; other site 397945011821 Helix-turn-helix domains; Region: HTH; cl00088 397945011822 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 397945011823 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 397945011824 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 397945011825 putative metal binding site [ion binding]; other site 397945011826 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 397945011827 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 397945011828 dimer interface [polypeptide binding]; other site 397945011829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945011830 catalytic residue [active] 397945011831 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 397945011832 putative catalytic site [active] 397945011833 putative metal binding site [ion binding]; other site 397945011834 putative phosphate binding site [ion binding]; other site 397945011835 cardiolipin synthase 2; Provisional; Region: PRK11263 397945011836 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 397945011837 putative active site [active] 397945011838 catalytic site [active] 397945011839 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 397945011840 putative active site [active] 397945011841 catalytic site [active] 397945011842 Predicted integral membrane protein [Function unknown]; Region: COG0392 397945011843 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 397945011844 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 397945011845 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945011846 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945011847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945011848 dimer interface [polypeptide binding]; other site 397945011849 putative CheW interface [polypeptide binding]; other site 397945011850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945011851 NMT1-like family; Region: NMT1_2; cl15260 397945011852 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 397945011853 intersubunit interface [polypeptide binding]; other site 397945011854 active site 397945011855 Zn2+ binding site [ion binding]; other site 397945011856 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 397945011857 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 397945011858 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 397945011859 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 397945011860 Ligand binding site [chemical binding]; other site 397945011861 Electron transfer flavoprotein domain; Region: ETF; pfam01012 397945011862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945011863 NMT1-like family; Region: NMT1_2; cl15260 397945011864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945011865 NMT1-like family; Region: NMT1_2; cl15260 397945011866 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 397945011867 CoA-transferase family III; Region: CoA_transf_3; pfam02515 397945011868 enoyl-CoA hydratase; Provisional; Region: PRK07511 397945011869 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 397945011870 substrate binding site [chemical binding]; other site 397945011871 oxyanion hole (OAH) forming residues; other site 397945011872 trimer interface [polypeptide binding]; other site 397945011873 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 397945011874 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 397945011875 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 397945011876 active site 397945011877 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 397945011878 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945011879 active site 397945011880 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 397945011881 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 397945011882 substrate binding site [chemical binding]; other site 397945011883 oxyanion hole (OAH) forming residues; other site 397945011884 trimer interface [polypeptide binding]; other site 397945011885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011886 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945011887 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 397945011888 LysR family transcriptional regulator; Provisional; Region: PRK14997 397945011889 Helix-turn-helix domains; Region: HTH; cl00088 397945011890 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 397945011891 putative effector binding pocket; other site 397945011892 dimerization interface [polypeptide binding]; other site 397945011893 Peptidase family M48; Region: Peptidase_M48; cl12018 397945011894 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 397945011895 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 397945011896 putative metal binding site [ion binding]; other site 397945011897 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 397945011898 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 397945011899 active site 397945011900 substrate binding pocket [chemical binding]; other site 397945011901 dimer interface [polypeptide binding]; other site 397945011902 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 397945011903 dimerization interface [polypeptide binding]; other site 397945011904 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945011905 dimer interface [polypeptide binding]; other site 397945011906 phosphorylation site [posttranslational modification] 397945011907 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 397945011908 ATP binding site [chemical binding]; other site 397945011909 Mg2+ binding site [ion binding]; other site 397945011910 G-X-G motif; other site 397945011911 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 397945011912 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 397945011913 active site 397945011914 phosphorylation site [posttranslational modification] 397945011915 intermolecular recognition site; other site 397945011916 dimerization interface [polypeptide binding]; other site 397945011917 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945011918 DNA binding site [nucleotide binding] 397945011919 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945011920 Outer membrane efflux protein; Region: OEP; pfam02321 397945011921 DevC protein; Region: devC; TIGR01185 397945011922 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 397945011923 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 397945011924 Walker A/P-loop; other site 397945011925 ATP binding site [chemical binding]; other site 397945011926 Q-loop/lid; other site 397945011927 ABC transporter signature motif; other site 397945011928 Walker B; other site 397945011929 D-loop; other site 397945011930 H-loop/switch region; other site 397945011931 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945011932 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945011933 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945011934 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 397945011935 Esterase/lipase [General function prediction only]; Region: COG1647 397945011936 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 397945011937 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 397945011938 catalytic residue [active] 397945011939 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 397945011940 Arginase family; Region: Arginase; cl00306 397945011941 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945011942 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 397945011943 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 397945011944 inhibitor-cofactor binding pocket; inhibition site 397945011945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945011946 catalytic residue [active] 397945011947 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 397945011948 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 397945011949 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 397945011950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945011951 Walker A/P-loop; other site 397945011952 ATP binding site [chemical binding]; other site 397945011953 Q-loop/lid; other site 397945011954 ABC transporter signature motif; other site 397945011955 Walker B; other site 397945011956 D-loop; other site 397945011957 H-loop/switch region; other site 397945011958 excinuclease ABC, A subunit; Region: uvra; TIGR00630 397945011959 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 397945011960 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 397945011961 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 397945011962 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 397945011963 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945011964 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 397945011965 putative ligand binding site [chemical binding]; other site 397945011966 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945011967 trimer interface [polypeptide binding]; other site 397945011968 eyelet of channel; other site 397945011969 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 397945011970 trimer interface [polypeptide binding]; other site 397945011971 eyelet of channel; other site 397945011972 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 397945011973 putative substrate translocation pore; other site 397945011974 metabolite-proton symporter; Region: 2A0106; TIGR00883 397945011975 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 397945011976 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 397945011977 putative catalytic residue [active] 397945011978 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 397945011979 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 397945011980 putative deacylase active site [active] 397945011981 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 397945011982 active site 397945011983 catalytic residues [active] 397945011984 metal binding site [ion binding]; metal-binding site 397945011985 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 397945011986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945011987 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 397945011988 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 397945011989 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945011990 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 397945011991 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 397945011992 carboxyltransferase (CT) interaction site; other site 397945011993 biotinylation site [posttranslational modification]; other site 397945011994 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 397945011995 enoyl-CoA hydratase; Provisional; Region: PRK05995 397945011996 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 397945011997 substrate binding site [chemical binding]; other site 397945011998 oxyanion hole (OAH) forming residues; other site 397945011999 trimer interface [polypeptide binding]; other site 397945012000 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 397945012001 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 397945012002 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 397945012003 AMP-binding domain protein; Validated; Region: PRK08315 397945012004 AMP-binding enzyme; Region: AMP-binding; cl15778 397945012005 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945012006 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 397945012007 Helix-turn-helix domain; Region: HTH_18; pfam12833 397945012008 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945012009 Helix-turn-helix domains; Region: HTH; cl00088 397945012010 Integrase core domain; Region: rve; cl01316 397945012011 DDE domain; Region: DDE_Tnp_IS240; pfam13610 397945012012 Integrase core domain; Region: rve_3; cl15866 397945012013 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 397945012014 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 397945012015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945012016 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945012017 dimer interface [polypeptide binding]; other site 397945012018 phosphorylation site [posttranslational modification] 397945012019 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 397945012020 ATP binding site [chemical binding]; other site 397945012021 Mg2+ binding site [ion binding]; other site 397945012022 G-X-G motif; other site 397945012023 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 397945012024 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012025 active site 397945012026 phosphorylation site [posttranslational modification] 397945012027 intermolecular recognition site; other site 397945012028 dimerization interface [polypeptide binding]; other site 397945012029 hypothetical protein; Provisional; Region: PRK01842 397945012030 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 397945012031 Protein of unknown function (DUF421); Region: DUF421; cl00990 397945012032 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 397945012033 conserved cys residue [active] 397945012034 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 397945012035 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 397945012036 active site 397945012037 OpgC protein; Region: OpgC_C; cl00792 397945012038 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 397945012039 NADP binding site [chemical binding]; other site 397945012040 homodimer interface [polypeptide binding]; other site 397945012041 active site 397945012042 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 397945012043 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 397945012044 dimer interface [polypeptide binding]; other site 397945012045 active site 397945012046 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 397945012047 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 397945012048 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 397945012049 active site clefts [active] 397945012050 zinc binding site [ion binding]; other site 397945012051 dimer interface [polypeptide binding]; other site 397945012052 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 397945012053 isovaleryl-CoA dehydrogenase; Region: PLN02519 397945012054 substrate binding site [chemical binding]; other site 397945012055 FAD binding site [chemical binding]; other site 397945012056 catalytic base [active] 397945012057 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 397945012058 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 397945012059 DNA binding residues [nucleotide binding] 397945012060 putative dimer interface [polypeptide binding]; other site 397945012061 ABC transporter ATPase component; Reviewed; Region: PRK11147 397945012062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945012063 Walker A/P-loop; other site 397945012064 ATP binding site [chemical binding]; other site 397945012065 Q-loop/lid; other site 397945012066 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945012067 ABC transporter signature motif; other site 397945012068 Walker B; other site 397945012069 D-loop; other site 397945012070 ABC transporter; Region: ABC_tran_2; pfam12848 397945012071 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 397945012072 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 397945012073 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 397945012074 active site 397945012075 phosphorylation site [posttranslational modification] 397945012076 intermolecular recognition site; other site 397945012077 dimerization interface [polypeptide binding]; other site 397945012078 CheB methylesterase; Region: CheB_methylest; pfam01339 397945012079 CheD chemotactic sensory transduction; Region: CheD; cl00810 397945012080 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 397945012081 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 397945012082 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 397945012083 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 397945012084 putative CheA interaction surface; other site 397945012085 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 397945012086 putative binding surface; other site 397945012087 active site 397945012088 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 397945012089 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 397945012090 ATP binding site [chemical binding]; other site 397945012091 Mg2+ binding site [ion binding]; other site 397945012092 G-X-G motif; other site 397945012093 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 397945012094 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012095 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 397945012096 active site 397945012097 phosphorylation site [posttranslational modification] 397945012098 intermolecular recognition site; other site 397945012099 dimerization interface [polypeptide binding]; other site 397945012100 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 397945012101 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012102 active site 397945012103 phosphorylation site [posttranslational modification] 397945012104 intermolecular recognition site; other site 397945012105 dimerization interface [polypeptide binding]; other site 397945012106 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 397945012107 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 397945012108 ATP binding site [chemical binding]; other site 397945012109 Mg2+ binding site [ion binding]; other site 397945012110 G-X-G motif; other site 397945012111 response regulator; Provisional; Region: PRK09483 397945012112 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 397945012113 active site 397945012114 phosphorylation site [posttranslational modification] 397945012115 intermolecular recognition site; other site 397945012116 dimerization interface [polypeptide binding]; other site 397945012117 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945012118 DNA binding residues [nucleotide binding] 397945012119 dimerization interface [polypeptide binding]; other site 397945012120 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 397945012121 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 397945012122 FliP family; Region: FliP; cl00593 397945012123 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 397945012124 flagellar motor switch protein; Validated; Region: fliN; PRK05698 397945012125 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 397945012126 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 397945012127 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 397945012128 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 397945012129 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 397945012130 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 397945012131 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 397945012132 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 397945012133 Walker A motif/ATP binding site; other site 397945012134 Walker B motif; other site 397945012135 Flagellar assembly protein FliH; Region: FliH; pfam02108 397945012136 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 397945012137 MgtE intracellular N domain; Region: MgtE_N; cl15244 397945012138 FliG C-terminal domain; Region: FliG_C; pfam01706 397945012139 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 397945012140 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 397945012141 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 397945012142 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 397945012143 Flagellar protein FliT; Region: FliT; cl05125 397945012144 Flagellar protein FliS; Region: FliS; cl00654 397945012145 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 397945012146 flagellar capping protein; Reviewed; Region: fliD; PRK08032 397945012147 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 397945012148 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 397945012149 flagellin; Provisional; Region: PRK12806 397945012150 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 397945012151 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 397945012152 flagellin; Provisional; Region: PRK12806 397945012153 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 397945012154 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 397945012155 WbqC-like protein family; Region: WbqC; pfam08889 397945012156 tocopherol O-methyltransferase; Region: PLN02244 397945012157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012158 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 397945012159 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 397945012160 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 397945012161 inhibitor-cofactor binding pocket; inhibition site 397945012162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012163 catalytic residue [active] 397945012164 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 397945012165 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 397945012166 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 397945012167 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 397945012168 Probable Catalytic site; other site 397945012169 metal-binding site 397945012170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 397945012171 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 397945012172 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 397945012173 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 397945012174 flagellar motor protein MotB; Validated; Region: motB; PRK09041 397945012175 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 397945012176 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945012177 ligand binding site [chemical binding]; other site 397945012178 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 397945012179 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 397945012180 active site 397945012181 phosphorylation site [posttranslational modification] 397945012182 intermolecular recognition site; other site 397945012183 dimerization interface [polypeptide binding]; other site 397945012184 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 397945012185 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 397945012186 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 397945012187 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 397945012188 FHIPEP family; Region: FHIPEP; pfam00771 397945012189 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 397945012190 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 397945012191 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 397945012192 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 397945012193 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 397945012194 DNA binding residues [nucleotide binding] 397945012195 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 397945012196 SAF domain; Region: SAF; cl00555 397945012197 SAF-like; Region: SAF_2; pfam13144 397945012198 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 397945012199 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 397945012200 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 397945012201 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 397945012202 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 397945012203 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 397945012204 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 397945012205 FlgD Ig-like domain; Region: FlgD_ig; cl15790 397945012206 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 397945012207 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 397945012208 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 397945012209 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 397945012210 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 397945012211 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 397945012212 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 397945012213 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 397945012214 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 397945012215 Flagellar L-ring protein; Region: FlgH; cl00905 397945012216 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 397945012217 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 397945012218 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 397945012219 Rod binding protein; Region: Rod-binding; cl01626 397945012220 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 397945012221 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 397945012222 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 397945012223 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 397945012224 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 397945012225 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 397945012226 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 397945012227 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 397945012228 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 397945012229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945012230 DNA-binding site [nucleotide binding]; DNA binding site 397945012231 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 397945012232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012233 homodimer interface [polypeptide binding]; other site 397945012234 catalytic residue [active] 397945012235 LysE type translocator; Region: LysE; cl00565 397945012236 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 397945012237 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 397945012238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012239 homodimer interface [polypeptide binding]; other site 397945012240 catalytic residue [active] 397945012241 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945012242 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 397945012243 putative C-terminal domain interface [polypeptide binding]; other site 397945012244 putative GSH binding site (G-site) [chemical binding]; other site 397945012245 putative dimer interface [polypeptide binding]; other site 397945012246 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 397945012247 putative N-terminal domain interface [polypeptide binding]; other site 397945012248 putative dimer interface [polypeptide binding]; other site 397945012249 putative substrate binding pocket (H-site) [chemical binding]; other site 397945012250 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 397945012251 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 397945012252 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 397945012253 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 397945012254 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 397945012255 tetramer interface [polypeptide binding]; other site 397945012256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012257 catalytic residue [active] 397945012258 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 397945012259 catalytic core [active] 397945012260 Creatinine amidohydrolase; Region: Creatininase; cl00618 397945012261 Helix-turn-helix domains; Region: HTH; cl00088 397945012262 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945012263 Integrase core domain; Region: rve; cl01316 397945012264 Integrase core domain; Region: rve_3; cl15866 397945012265 methyl-accepting protein IV; Provisional; Region: PRK09793 397945012266 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945012267 dimer interface [polypeptide binding]; other site 397945012268 putative CheW interface [polypeptide binding]; other site 397945012269 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945012270 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945012271 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945012272 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 397945012273 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 397945012274 N-terminal plug; other site 397945012275 ligand-binding site [chemical binding]; other site 397945012276 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 397945012277 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 397945012278 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 397945012279 LysR family transcriptional regulator; Provisional; Region: PRK14997 397945012280 Helix-turn-helix domains; Region: HTH; cl00088 397945012281 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 397945012282 putative effector binding pocket; other site 397945012283 dimerization interface [polypeptide binding]; other site 397945012284 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 397945012285 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 397945012286 putative NAD(P) binding site [chemical binding]; other site 397945012287 dimer interface [polypeptide binding]; other site 397945012288 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 397945012289 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 397945012290 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 397945012291 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 397945012292 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 397945012293 DsbD alpha interface [polypeptide binding]; other site 397945012294 catalytic residues [active] 397945012295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 397945012296 Helix-turn-helix domains; Region: HTH; cl00088 397945012297 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 397945012298 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 397945012299 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 397945012300 Integral membrane protein TerC family; Region: TerC; cl10468 397945012301 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 397945012302 Helix-turn-helix domains; Region: HTH; cl00088 397945012303 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 397945012304 dimerization interface [polypeptide binding]; other site 397945012305 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 397945012306 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 397945012307 Sulfatase; Region: Sulfatase; cl10460 397945012308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945012309 NMT1-like family; Region: NMT1_2; cl15260 397945012310 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 397945012311 Helix-turn-helix domains; Region: HTH; cl00088 397945012312 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 397945012313 substrate binding site [chemical binding]; other site 397945012314 active site 397945012315 primosome assembly protein PriA; Validated; Region: PRK05580 397945012316 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 397945012317 ATP binding site [chemical binding]; other site 397945012318 putative Mg++ binding site [ion binding]; other site 397945012319 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945012320 Membrane transport protein; Region: Mem_trans; cl09117 397945012321 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 397945012322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945012323 Family description; Region: UvrD_C_2; cl15862 397945012324 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 397945012325 substrate binding site [chemical binding]; other site 397945012326 dimerization interface [polypeptide binding]; other site 397945012327 active site 397945012328 calcium binding site [ion binding]; other site 397945012329 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 397945012330 Ligand Binding Site [chemical binding]; other site 397945012331 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 397945012332 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 397945012333 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 397945012334 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 397945012335 putative GSH binding site (G-site) [chemical binding]; other site 397945012336 putative C-terminal domain interface [polypeptide binding]; other site 397945012337 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 397945012338 putative N-terminal domain interface [polypeptide binding]; other site 397945012339 putative dimer interface [polypeptide binding]; other site 397945012340 putative substrate binding pocket (H-site) [chemical binding]; other site 397945012341 short chain dehydrogenase; Provisional; Region: PRK06701 397945012342 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 397945012343 NAD binding site [chemical binding]; other site 397945012344 metal binding site [ion binding]; metal-binding site 397945012345 active site 397945012346 Double zinc ribbon; Region: DZR; pfam12773 397945012347 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 397945012348 yiaA/B two helix domain; Region: YiaAB; cl01759 397945012349 yiaA/B two helix domain; Region: YiaAB; cl01759 397945012350 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 397945012351 Helix-turn-helix domains; Region: HTH; cl00088 397945012352 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 397945012353 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 397945012354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945012355 catalytic residue [active] 397945012356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945012357 NMT1-like family; Region: NMT1_2; cl15260 397945012358 methyl-accepting protein IV; Provisional; Region: PRK09793 397945012359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945012360 dimer interface [polypeptide binding]; other site 397945012361 putative CheW interface [polypeptide binding]; other site 397945012362 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 397945012363 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 397945012364 putative acyl-acceptor binding pocket; other site 397945012365 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945012366 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945012367 Catalytic site [active] 397945012368 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 397945012369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945012370 NMT1-like family; Region: NMT1_2; cl15260 397945012371 Helix-turn-helix domains; Region: HTH; cl00088 397945012372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945012373 Integrase core domain; Region: rve; cl01316 397945012374 Integrase core domain; Region: rve_3; cl15866 397945012375 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 397945012376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012377 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 397945012378 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 397945012379 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 397945012380 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 397945012381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012382 FIST N domain; Region: FIST; cl10701 397945012383 FIST C domain; Region: FIST_C; pfam10442 397945012384 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 397945012385 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 397945012386 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 397945012387 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 397945012388 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 397945012389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012390 NAD(P) binding site [chemical binding]; other site 397945012391 active site 397945012392 NMT1/THI5 like; Region: NMT1; pfam09084 397945012393 NMT1-like family; Region: NMT1_2; cl15260 397945012394 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 397945012395 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 397945012396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945012397 Walker A/P-loop; other site 397945012398 ATP binding site [chemical binding]; other site 397945012399 Q-loop/lid; other site 397945012400 ABC transporter signature motif; other site 397945012401 Walker B; other site 397945012402 D-loop; other site 397945012403 H-loop/switch region; other site 397945012404 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 397945012405 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 397945012406 putative catalytic cysteine [active] 397945012407 AMP-binding enzyme; Region: AMP-binding; cl15778 397945012408 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 397945012409 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 397945012410 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 397945012411 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 397945012412 non-specific DNA binding site [nucleotide binding]; other site 397945012413 salt bridge; other site 397945012414 sequence-specific DNA binding site [nucleotide binding]; other site 397945012415 HipA N-terminal domain; Region: Couple_hipA; cl11853 397945012416 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 397945012417 HipA-like N-terminal domain; Region: HipA_N; pfam07805 397945012418 HipA-like C-terminal domain; Region: HipA_C; pfam07804 397945012419 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 397945012420 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 397945012421 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 397945012422 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 397945012423 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 397945012424 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 397945012425 E-class dimer interface [polypeptide binding]; other site 397945012426 P-class dimer interface [polypeptide binding]; other site 397945012427 active site 397945012428 Cu2+ binding site [ion binding]; other site 397945012429 Zn2+ binding site [ion binding]; other site 397945012430 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 397945012431 Major Facilitator Superfamily; Region: MFS_1; pfam07690 397945012432 putative substrate translocation pore; other site 397945012433 Response regulator receiver domain; Region: Response_reg; pfam00072 397945012434 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 397945012435 active site 397945012436 phosphorylation site [posttranslational modification] 397945012437 intermolecular recognition site; other site 397945012438 dimerization interface [polypeptide binding]; other site 397945012439 Helix-turn-helix domains; Region: HTH; cl00088 397945012440 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 397945012441 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945012442 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 397945012443 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945012444 dimer interface [polypeptide binding]; other site 397945012445 phosphorylation site [posttranslational modification] 397945012446 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 397945012447 ATP binding site [chemical binding]; other site 397945012448 Mg2+ binding site [ion binding]; other site 397945012449 G-X-G motif; other site 397945012450 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 397945012451 16S rRNA methyltransferase B; Provisional; Region: PRK10901 397945012452 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 397945012453 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 397945012454 S-adenosylmethionine binding site [chemical binding]; other site 397945012455 LemA family; Region: LemA; cl00742 397945012456 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 397945012457 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 397945012458 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 397945012459 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 397945012460 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 397945012461 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 397945012462 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 397945012463 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 397945012464 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 397945012465 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 397945012466 DNA binding site [nucleotide binding] 397945012467 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 397945012468 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 397945012469 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 397945012470 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 397945012471 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 397945012472 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 397945012473 RPB11 interaction site [polypeptide binding]; other site 397945012474 RPB12 interaction site [polypeptide binding]; other site 397945012475 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 397945012476 RPB3 interaction site [polypeptide binding]; other site 397945012477 RPB1 interaction site [polypeptide binding]; other site 397945012478 RPB11 interaction site [polypeptide binding]; other site 397945012479 RPB10 interaction site [polypeptide binding]; other site 397945012480 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 397945012481 peripheral dimer interface [polypeptide binding]; other site 397945012482 core dimer interface [polypeptide binding]; other site 397945012483 L10 interface [polypeptide binding]; other site 397945012484 L11 interface [polypeptide binding]; other site 397945012485 putative EF-Tu interaction site [polypeptide binding]; other site 397945012486 putative EF-G interaction site [polypeptide binding]; other site 397945012487 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 397945012488 23S rRNA interface [nucleotide binding]; other site 397945012489 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 397945012490 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 397945012491 mRNA/rRNA interface [nucleotide binding]; other site 397945012492 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 397945012493 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 397945012494 23S rRNA interface [nucleotide binding]; other site 397945012495 L7/L12 interface [polypeptide binding]; other site 397945012496 putative thiostrepton binding site; other site 397945012497 L25 interface [polypeptide binding]; other site 397945012498 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 397945012499 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 397945012500 putative homodimer interface [polypeptide binding]; other site 397945012501 KOW motif; Region: KOW; cl00354 397945012502 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 397945012503 elongation factor Tu; Reviewed; Region: PRK00049 397945012504 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 397945012505 G1 box; other site 397945012506 GEF interaction site [polypeptide binding]; other site 397945012507 GTP/Mg2+ binding site [chemical binding]; other site 397945012508 Switch I region; other site 397945012509 G2 box; other site 397945012510 G3 box; other site 397945012511 Switch II region; other site 397945012512 G4 box; other site 397945012513 G5 box; other site 397945012514 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 397945012515 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 397945012516 Antibiotic Binding Site [chemical binding]; other site 397945012517 glutathione synthetase; Provisional; Region: PRK05246 397945012518 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 397945012519 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945012520 Benzoate membrane transport protein; Region: BenE; pfam03594 397945012521 benzoate transporter; Region: benE; TIGR00843 397945012522 potassium uptake protein; Region: kup; TIGR00794 397945012523 K+ potassium transporter; Region: K_trans; cl15781 397945012524 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 397945012525 Glutamate-cysteine ligase; Region: GshA; pfam08886 397945012526 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 397945012527 Cation transport protein; Region: TrkH; cl10514 397945012528 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 397945012529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012530 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 397945012531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012532 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 397945012533 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 397945012534 putative catalytic cysteine [active] 397945012535 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 397945012536 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 397945012537 Lipopolysaccharide-assembly; Region: LptE; cl01125 397945012538 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 397945012539 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 397945012540 HIGH motif; other site 397945012541 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 397945012542 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945012543 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 397945012544 active site 397945012545 KMSKS motif; other site 397945012546 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 397945012547 tRNA binding surface [nucleotide binding]; other site 397945012548 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 397945012549 Catalytic site [active] 397945012550 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 397945012551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945012552 metal binding site [ion binding]; metal-binding site 397945012553 active site 397945012554 I-site; other site 397945012555 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 397945012556 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 397945012557 dihydrodipicolinate reductase; Provisional; Region: PRK00048 397945012558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012559 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 397945012560 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 397945012561 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 397945012562 metal binding site 2 [ion binding]; metal-binding site 397945012563 putative DNA binding helix; other site 397945012564 metal binding site 1 [ion binding]; metal-binding site 397945012565 dimer interface [polypeptide binding]; other site 397945012566 structural Zn2+ binding site [ion binding]; other site 397945012567 HPr kinase/phosphorylase; Provisional; Region: PRK05428 397945012568 DRTGG domain; Region: DRTGG; cl12147 397945012569 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 397945012570 Hpr binding site; other site 397945012571 active site 397945012572 homohexamer subunit interaction site [polypeptide binding]; other site 397945012573 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 397945012574 active site 397945012575 phosphorylation site [posttranslational modification] 397945012576 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 397945012577 30S subunit binding site; other site 397945012578 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 397945012579 ATP binding site [chemical binding]; other site 397945012580 active site 397945012581 substrate binding site [chemical binding]; other site 397945012582 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 397945012583 META domain; Region: META; cl01245 397945012584 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 397945012585 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 397945012586 AIR carboxylase; Region: AIRC; cl00310 397945012587 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 397945012588 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945012589 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 397945012590 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 397945012591 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 397945012592 active site 397945012593 catalytic triad [active] 397945012594 oxyanion hole [active] 397945012595 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 397945012596 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 397945012597 active site 397945012598 catalytic triad [active] 397945012599 oxyanion hole [active] 397945012600 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 397945012601 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 397945012602 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 397945012603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 397945012604 Coenzyme A binding pocket [chemical binding]; other site 397945012605 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 397945012606 active site 397945012607 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 397945012608 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 397945012609 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 397945012610 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 397945012611 AMP-binding enzyme; Region: AMP-binding; cl15778 397945012612 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945012613 hypothetical protein; Provisional; Region: PRK08185 397945012614 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 397945012615 intersubunit interface [polypeptide binding]; other site 397945012616 active site 397945012617 zinc binding site [ion binding]; other site 397945012618 Na+ binding site [ion binding]; other site 397945012619 sensor protein QseC; Provisional; Region: PRK10337 397945012620 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945012621 dimer interface [polypeptide binding]; other site 397945012622 phosphorylation site [posttranslational modification] 397945012623 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 397945012624 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 397945012625 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 397945012626 active site 397945012627 phosphorylation site [posttranslational modification] 397945012628 intermolecular recognition site; other site 397945012629 dimerization interface [polypeptide binding]; other site 397945012630 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945012631 DNA binding site [nucleotide binding] 397945012632 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 397945012633 active site 397945012634 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 397945012635 active site 397945012636 pyruvate kinase; Provisional; Region: PRK05826 397945012637 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 397945012638 domain interfaces; other site 397945012639 active site 397945012640 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 397945012641 proline aminopeptidase P II; Provisional; Region: PRK10879 397945012642 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 397945012643 active site 397945012644 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 397945012645 Substrate binding site; other site 397945012646 metal-binding site 397945012647 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 397945012648 transketolase; Reviewed; Region: PRK12753 397945012649 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 397945012650 TPP-binding site [chemical binding]; other site 397945012651 dimer interface [polypeptide binding]; other site 397945012652 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 397945012653 PYR/PP interface [polypeptide binding]; other site 397945012654 dimer interface [polypeptide binding]; other site 397945012655 TPP binding site [chemical binding]; other site 397945012656 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 397945012657 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945012658 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 397945012659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012660 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 397945012661 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945012662 Helix-turn-helix domains; Region: HTH; cl00088 397945012663 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 397945012664 dimerization interface [polypeptide binding]; other site 397945012665 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 397945012666 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 397945012667 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945012668 ligand binding site [chemical binding]; other site 397945012669 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 397945012670 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 397945012671 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 397945012672 FeS/SAM binding site; other site 397945012673 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 397945012674 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; cl00250 397945012675 30S subunit binding site; other site 397945012676 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 397945012677 Peptidase C26; Region: Peptidase_C26; pfam07722 397945012678 catalytic triad [active] 397945012679 Helix-turn-helix domains; Region: HTH; cl00088 397945012680 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 397945012681 Integrase core domain; Region: rve; cl01316 397945012682 Integrase core domain; Region: rve_3; cl15866 397945012683 Spore Coat Protein U domain; Region: SCPU; cl02253 397945012684 Spore Coat Protein U domain; Region: SCPU; cl02253 397945012685 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 397945012686 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 397945012687 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 397945012688 PapC C-terminal domain; Region: PapC_C; pfam13953 397945012689 Spore Coat Protein U domain; Region: SCPU; cl02253 397945012690 Spore Coat Protein U domain; Region: SCPU; cl02253 397945012691 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 397945012692 Cupin domain; Region: Cupin_2; cl09118 397945012693 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 397945012694 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; cl15777 397945012695 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 397945012696 Mechanosensitive ion channel; Region: MS_channel; pfam00924 397945012697 Sulfatase; Region: Sulfatase; cl10460 397945012698 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 397945012699 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 397945012700 putative NAD(P) binding site [chemical binding]; other site 397945012701 active site 397945012702 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 397945012703 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945012704 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 397945012705 dimer interface [polypeptide binding]; other site 397945012706 Helix-turn-helix domains; Region: HTH; cl00088 397945012707 WHG domain; Region: WHG; pfam13305 397945012708 Transposase domain (DUF772); Region: DUF772; cl15789 397945012709 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 397945012710 Transposase domain (DUF772); Region: DUF772; cl15789 397945012711 Transposase domain (DUF772); Region: DUF772; cl15789 397945012712 Restriction endonuclease; Region: Mrr_cat; cl00516 397945012713 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 397945012714 Family description; Region: UvrD_C_2; cl15862 397945012715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012716 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 397945012717 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 397945012718 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 397945012719 RDD family; Region: RDD; cl00746 397945012720 Fic family protein [Function unknown]; Region: COG3177 397945012721 Fic/DOC family; Region: Fic; cl00960 397945012722 DNA topoisomerase III; Validated; Region: PRK08173 397945012723 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 397945012724 active site 397945012725 putative interdomain interaction site [polypeptide binding]; other site 397945012726 putative metal-binding site [ion binding]; other site 397945012727 putative nucleotide binding site [chemical binding]; other site 397945012728 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 397945012729 domain I; other site 397945012730 DNA binding groove [nucleotide binding] 397945012731 phosphate binding site [ion binding]; other site 397945012732 domain II; other site 397945012733 domain III; other site 397945012734 nucleotide binding site [chemical binding]; other site 397945012735 catalytic site [active] 397945012736 domain IV; other site 397945012737 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 397945012738 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 397945012739 SWIB/MDM2 domain; Region: SWIB; cl02489 397945012740 SET domain; Region: SET; cl02566 397945012741 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 397945012742 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 397945012743 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 397945012744 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 397945012745 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 397945012746 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 397945012747 N-formylglutamate amidohydrolase; Region: FGase; cl01522 397945012748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945012749 NMT1-like family; Region: NMT1_2; cl15260 397945012750 Helix-turn-helix domains; Region: HTH; cl00088 397945012751 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 397945012752 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 397945012753 dimerization interface [polypeptide binding]; other site 397945012754 substrate binding pocket [chemical binding]; other site 397945012755 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 397945012756 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945012757 dimer interface [polypeptide binding]; other site 397945012758 phosphorylation site [posttranslational modification] 397945012759 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 397945012760 ATP binding site [chemical binding]; other site 397945012761 Mg2+ binding site [ion binding]; other site 397945012762 G-X-G motif; other site 397945012763 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 397945012764 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 397945012765 active site 397945012766 phosphorylation site [posttranslational modification] 397945012767 intermolecular recognition site; other site 397945012768 dimerization interface [polypeptide binding]; other site 397945012769 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 397945012770 DNA binding site [nucleotide binding] 397945012771 recombinase A; Provisional; Region: recA; PRK09354 397945012772 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 397945012773 hexamer interface [polypeptide binding]; other site 397945012774 Walker A motif; other site 397945012775 ATP binding site [chemical binding]; other site 397945012776 Walker B motif; other site 397945012777 RecX family; Region: RecX; cl00936 397945012778 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 397945012779 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 397945012780 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 397945012781 Protein export membrane protein; Region: SecD_SecF; cl14618 397945012782 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 397945012783 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 397945012784 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 397945012785 Protein export membrane protein; Region: SecD_SecF; cl14618 397945012786 Preprotein translocase subunit; Region: YajC; cl00806 397945012787 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 397945012788 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 397945012789 dimer interface [polypeptide binding]; other site 397945012790 PYR/PP interface [polypeptide binding]; other site 397945012791 TPP binding site [chemical binding]; other site 397945012792 substrate binding site [chemical binding]; other site 397945012793 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 397945012794 TPP-binding site; other site 397945012795 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 397945012796 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 397945012797 Helix-turn-helix domains; Region: HTH; cl00088 397945012798 Transmembrane secretion effector; Region: MFS_3; pfam05977 397945012799 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 397945012800 putative substrate translocation pore; other site 397945012801 MltA specific insert domain; Region: MltA; cl08398 397945012802 3D domain; Region: 3D; cl01439 397945012803 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 397945012804 ligand binding site [chemical binding]; other site 397945012805 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 397945012806 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 397945012807 active site 397945012808 phosphorylation site [posttranslational modification] 397945012809 intermolecular recognition site; other site 397945012810 dimerization interface [polypeptide binding]; other site 397945012811 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 397945012812 DNA binding residues [nucleotide binding] 397945012813 dimerization interface [polypeptide binding]; other site 397945012814 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 397945012815 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 397945012816 putative active site [active] 397945012817 heme pocket [chemical binding]; other site 397945012818 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945012819 dimer interface [polypeptide binding]; other site 397945012820 phosphorylation site [posttranslational modification] 397945012821 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 397945012822 ATP binding site [chemical binding]; other site 397945012823 Mg2+ binding site [ion binding]; other site 397945012824 G-X-G motif; other site 397945012825 Predicted amidohydrolase [General function prediction only]; Region: COG0388 397945012826 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 397945012827 putative active site [active] 397945012828 catalytic triad [active] 397945012829 dimer interface [polypeptide binding]; other site 397945012830 TIGR02099 family protein; Region: TIGR02099 397945012831 AsmA-like C-terminal region; Region: AsmA_2; cl15864 397945012832 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 397945012833 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 397945012834 metal binding triad; other site 397945012835 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 397945012836 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 397945012837 metal binding triad; other site 397945012838 Condensation domain; Region: Condensation; pfam00668 397945012839 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 397945012840 AMP-binding enzyme; Region: AMP-binding; cl15778 397945012841 AMP-binding enzyme; Region: AMP-binding; cl15778 397945012842 Phosphopantetheine attachment site; Region: PP-binding; cl09936 397945012843 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 397945012844 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 397945012845 putative NAD(P) binding site [chemical binding]; other site 397945012846 active site 397945012847 putative substrate binding site [chemical binding]; other site 397945012848 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 397945012849 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 397945012850 active site 397945012851 TDP-binding site; other site 397945012852 acceptor substrate-binding pocket; other site 397945012853 homodimer interface [polypeptide binding]; other site 397945012854 MbtH-like protein; Region: MbtH; cl01279 397945012855 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 397945012856 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 397945012857 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 397945012858 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 397945012859 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 397945012860 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 397945012861 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 397945012862 catalytic residues [active] 397945012863 dimer interface [polypeptide binding]; other site 397945012864 putative glutathione S-transferase; Provisional; Region: PRK10357 397945012865 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 397945012866 putative C-terminal domain interface [polypeptide binding]; other site 397945012867 putative GSH binding site (G-site) [chemical binding]; other site 397945012868 putative dimer interface [polypeptide binding]; other site 397945012869 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 397945012870 dimer interface [polypeptide binding]; other site 397945012871 N-terminal domain interface [polypeptide binding]; other site 397945012872 putative substrate binding pocket (H-site) [chemical binding]; other site 397945012873 adenylosuccinate lyase; Provisional; Region: PRK09285 397945012874 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 397945012875 tetramer interface [polypeptide binding]; other site 397945012876 active site 397945012877 YaeQ protein; Region: YaeQ; cl01913 397945012878 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 397945012879 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 397945012880 Integral membrane protein TerC family; Region: TerC; cl10468 397945012881 Membrane protein of unknown function; Region: DUF360; cl00850 397945012882 Peptidase family M48; Region: Peptidase_M48; cl12018 397945012883 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 397945012884 trimer interface [polypeptide binding]; other site 397945012885 dimer interface [polypeptide binding]; other site 397945012886 putative active site [active] 397945012887 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 397945012888 O-Antigen ligase; Region: Wzy_C; cl04850 397945012889 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 397945012890 putative major pilin subunit; Provisional; Region: PRK10574 397945012891 Pilin (bacterial filament); Region: Pilin; pfam00114 397945012892 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 397945012893 phosphopeptide binding site; other site 397945012894 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; cd00143 397945012895 active site 397945012896 Integral membrane protein TerC family; Region: TerC; cl10468 397945012897 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 397945012898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012899 CoA-ligase; Region: Ligase_CoA; cl02894 397945012900 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 397945012901 ATP-grasp domain; Region: ATP-grasp_4; cl03087 397945012902 CoA-ligase; Region: Ligase_CoA; cl02894 397945012903 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 397945012904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945012905 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 397945012906 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 397945012907 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; cd00118 397945012908 putative peptidoglycan binding site; other site 397945012909 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 397945012910 active site 397945012911 catalytic residues [active] 397945012912 metal binding site [ion binding]; metal-binding site 397945012913 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 397945012914 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 397945012915 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 397945012916 putative active site [active] 397945012917 substrate binding site [chemical binding]; other site 397945012918 putative cosubstrate binding site; other site 397945012919 catalytic site [active] 397945012920 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 397945012921 substrate binding site [chemical binding]; other site 397945012922 AzlC protein; Region: AzlC; cl00570 397945012923 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 397945012924 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 397945012925 Phosphoglycerate kinase; Region: PGK; pfam00162 397945012926 substrate binding site [chemical binding]; other site 397945012927 hinge regions; other site 397945012928 ADP binding site [chemical binding]; other site 397945012929 catalytic site [active] 397945012930 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 397945012931 substrate binding site [chemical binding]; other site 397945012932 EamA-like transporter family; Region: EamA; cl01037 397945012933 EamA-like transporter family; Region: EamA; cl01037 397945012934 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 397945012935 active site 397945012936 dimer interface [polypeptide binding]; other site 397945012937 OpgC protein; Region: OpgC_C; cl00792 397945012938 Acyltransferase family; Region: Acyl_transf_3; pfam01757 397945012939 cell density-dependent motility repressor; Provisional; Region: PRK10082 397945012940 Helix-turn-helix domains; Region: HTH; cl00088 397945012941 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 397945012942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 397945012943 NMT1-like family; Region: NMT1_2; cl15260 397945012944 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 397945012945 active site 397945012946 Zn binding site [ion binding]; other site 397945012947 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 397945012948 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 397945012949 EamA-like transporter family; Region: EamA; cl01037 397945012950 EamA-like transporter family; Region: EamA; cl01037 397945012951 Nitrate and nitrite sensing; Region: NIT; pfam08376 397945012952 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 397945012953 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 397945012954 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 397945012955 dimer interface [polypeptide binding]; other site 397945012956 putative CheW interface [polypeptide binding]; other site 397945012957 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 397945012958 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 397945012959 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 397945012960 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 397945012961 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 397945012962 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 397945012963 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 397945012964 ligand-binding site [chemical binding]; other site 397945012965 Ubiquitin homologues; Region: UBQ; smart00213 397945012966 Ubiquitin; Region: Ubiquitin; cd01803 397945012967 Ubq - E2 interaction site; other site 397945012968 Ubq - UCH interaction site; other site 397945012969 Ubq - CUE interaction site; other site 397945012970 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 397945012971 putative substrate translocation pore; other site 397945012972 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 397945012973 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 397945012974 putative ion selectivity filter; other site 397945012975 putative pore gating glutamate residue; other site 397945012976 putative H+/Cl- coupling transport residue; other site 397945012977 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 397945012978 dimer interface [polypeptide binding]; other site 397945012979 ssDNA binding site [nucleotide binding]; other site 397945012980 tetramer (dimer of dimers) interface [polypeptide binding]; other site 397945012981 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 397945012982 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 397945012983 dimerization interface [polypeptide binding]; other site 397945012984 putative DNA binding site [nucleotide binding]; other site 397945012985 putative Zn2+ binding site [ion binding]; other site 397945012986 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 397945012987 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 397945012988 PAS fold; Region: PAS_7; pfam12860 397945012989 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945012990 metal binding site [ion binding]; metal-binding site 397945012991 active site 397945012992 I-site; other site 397945012993 glycolate transporter; Provisional; Region: PRK09695 397945012994 L-lactate permease; Region: Lactate_perm; cl00701 397945012995 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 397945012996 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 397945012997 Ligand Binding Site [chemical binding]; other site 397945012998 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 397945012999 nudix motif; other site 397945013000 EamA-like transporter family; Region: EamA; cl01037 397945013001 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 397945013002 dimerization interface [polypeptide binding]; other site 397945013003 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 397945013004 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 397945013005 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013006 metal binding site [ion binding]; metal-binding site 397945013007 active site 397945013008 I-site; other site 397945013009 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 397945013010 Lumazine binding domain; Region: Lum_binding; pfam00677 397945013011 Lumazine binding domain; Region: Lum_binding; pfam00677 397945013012 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 397945013013 putative active site [active] 397945013014 PAS fold; Region: PAS_3; pfam08447 397945013015 heme pocket [chemical binding]; other site 397945013016 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 397945013017 GAF domain; Region: GAF; cl15785 397945013018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 397945013019 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 397945013020 dimer interface [polypeptide binding]; other site 397945013021 phosphorylation site [posttranslational modification] 397945013022 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 397945013023 ATP binding site [chemical binding]; other site 397945013024 Mg2+ binding site [ion binding]; other site 397945013025 G-X-G motif; other site 397945013026 Response regulator receiver domain; Region: Response_reg; pfam00072 397945013027 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 397945013028 active site 397945013029 phosphorylation site [posttranslational modification] 397945013030 intermolecular recognition site; other site 397945013031 dimerization interface [polypeptide binding]; other site 397945013032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 397945013033 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 397945013034 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 397945013035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945013036 spermidine synthase; Provisional; Region: PRK03612 397945013037 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; cl15754 397945013038 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 397945013039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945013040 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 397945013041 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 397945013042 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 397945013043 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 397945013044 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 397945013045 Short C-terminal domain; Region: SHOCT; cl01373 397945013046 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 397945013047 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 397945013048 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 397945013049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 397945013050 Helix-turn-helix domains; Region: HTH; cl00088 397945013051 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 397945013052 dimerization interface [polypeptide binding]; other site 397945013053 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 397945013054 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 397945013055 inhibitor-cofactor binding pocket; inhibition site 397945013056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 397945013057 catalytic residue [active] 397945013058 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 397945013059 conserved cys residue [active] 397945013060 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 397945013061 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 397945013062 tetrameric interface [polypeptide binding]; other site 397945013063 NAD binding site [chemical binding]; other site 397945013064 catalytic residues [active] 397945013065 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 397945013066 MASE2 domain; Region: MASE2; pfam05230 397945013067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013068 metal binding site [ion binding]; metal-binding site 397945013069 active site 397945013070 I-site; other site 397945013071 Transcriptional regulators [Transcription]; Region: FadR; COG2186 397945013072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 397945013073 DNA-binding site [nucleotide binding]; DNA binding site 397945013074 FCD domain; Region: FCD; cl11656 397945013075 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 397945013076 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 397945013077 putative ligand binding site [chemical binding]; other site 397945013078 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 397945013079 TM-ABC transporter signature motif; other site 397945013080 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 397945013081 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 397945013082 Walker A/P-loop; other site 397945013083 ATP binding site [chemical binding]; other site 397945013084 Q-loop/lid; other site 397945013085 ABC transporter signature motif; other site 397945013086 Walker B; other site 397945013087 D-loop; other site 397945013088 H-loop/switch region; other site 397945013089 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 397945013090 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 397945013091 Walker A/P-loop; other site 397945013092 ATP binding site [chemical binding]; other site 397945013093 Q-loop/lid; other site 397945013094 ABC transporter signature motif; other site 397945013095 Walker B; other site 397945013096 D-loop; other site 397945013097 H-loop/switch region; other site 397945013098 allantoate amidohydrolase; Reviewed; Region: PRK12893 397945013099 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 397945013100 active site 397945013101 metal binding site [ion binding]; metal-binding site 397945013102 dimer interface [polypeptide binding]; other site 397945013103 Uncharacterized conserved protein [Function unknown]; Region: COG5476 397945013104 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 397945013105 MlrC C-terminus; Region: MlrC_C; pfam07171 397945013106 malic enzyme; Reviewed; Region: PRK12862 397945013107 Malic enzyme, N-terminal domain; Region: malic; pfam00390 397945013108 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 397945013109 putative NAD(P) binding site [chemical binding]; other site 397945013110 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 397945013111 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 397945013112 active site 397945013113 barstar interaction site; other site 397945013114 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 397945013115 putative RNAase interaction site [polypeptide binding]; other site 397945013116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945013117 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 397945013118 SurA N-terminal domain; Region: SurA_N_3; cl07813 397945013119 PPIC-type PPIASE domain; Region: Rotamase; cl08278 397945013120 PPIC-type PPIASE domain; Region: Rotamase; cl08278 397945013121 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 397945013122 Organic solvent tolerance protein; Region: OstA_C; pfam04453 397945013123 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 397945013124 Phosphotransferase enzyme family; Region: APH; pfam01636 397945013125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 397945013126 RNA methyltransferase, RsmE family; Region: TIGR00046 397945013127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945013128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 397945013129 Walker A/P-loop; other site 397945013130 ATP binding site [chemical binding]; other site 397945013131 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 397945013132 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 397945013133 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 397945013134 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 397945013135 putative substrate translocation pore; other site 397945013136 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 397945013137 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 397945013138 metal binding site [ion binding]; metal-binding site 397945013139 putative dimer interface [polypeptide binding]; other site 397945013140 transcriptional regulator EutR; Provisional; Region: PRK10130 397945013141 transcriptional regulator EutR; Provisional; Region: PRK10130 397945013142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 397945013143 ethanolamine permease; Region: 2A0305; TIGR00908 397945013144 Spore germination protein; Region: Spore_permease; cl15802 397945013145 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 397945013146 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 397945013147 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 397945013148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 397945013149 metal binding site [ion binding]; metal-binding site 397945013150 active site 397945013151 I-site; other site 397945013152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945013153 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 397945013154 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 397945013155 Predicted membrane protein [Function unknown]; Region: COG2119 397945013156 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 397945013157 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 397945013158 yybP-ykoY element as predicted by Rfam (RF00080), score 52.88 397945013159 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 397945013160 RNA/DNA binding site [nucleotide binding]; other site 397945013161 RRM dimerization site [polypeptide binding]; other site 397945013162 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 397945013163 RNA/DNA binding site [nucleotide binding]; other site 397945013164 RRM dimerization site [polypeptide binding]; other site 397945013165 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 397945013166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945013167 NAD(P) binding site [chemical binding]; other site 397945013168 active site 397945013169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 397945013170 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 397945013171 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 397945013172 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 397945013173 KpsF/GutQ family protein; Region: kpsF; TIGR00393 397945013174 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 397945013175 putative active site [active] 397945013176 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 397945013177 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 397945013178 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 397945013179 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 397945013180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 397945013181 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 397945013182 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 397945013183 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 397945013184 active site 397945013185 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 397945013186 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 397945013187 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 397945013188 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 397945013189 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_like1; cd06200 397945013190 FAD binding pocket [chemical binding]; other site 397945013191 FAD binding motif [chemical binding]; other site 397945013192 catalytic residues [active] 397945013193 NAD binding pocket [chemical binding]; other site 397945013194 phosphate binding motif [ion binding]; other site 397945013195 beta-alpha-beta structure motif; other site 397945013196 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 397945013197 ligand binding site [chemical binding]; other site 397945013198 flexible hinge region; other site 397945013199 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 397945013200 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 397945013201 trmE is a tRNA modification GTPase; Region: trmE; cd04164 397945013202 G1 box; other site 397945013203 GTP/Mg2+ binding site [chemical binding]; other site 397945013204 Switch I region; other site 397945013205 G2 box; other site 397945013206 Switch II region; other site 397945013207 G3 box; other site 397945013208 G4 box; other site 397945013209 G5 box; other site 397945013210 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 397945013211 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_2; cd08498 397945013212 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 397945013213 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 397945013214 membrane protein insertase; Provisional; Region: PRK01318 397945013215 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 397945013216 Haemolytic domain; Region: Haemolytic; cl00506 397945013217 Ribonuclease P; Region: Ribonuclease_P; cl00457 397945013218 Ribosomal protein L34; Region: Ribosomal_L34; cl00370