-- dump date 20120504_132542 -- class Genbank::misc_feature -- table misc_feature_note -- id note 596154000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 596154000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 596154000003 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 596154000004 Walker A motif; other site 596154000005 ATP binding site [chemical binding]; other site 596154000006 Walker B motif; other site 596154000007 arginine finger; other site 596154000008 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 596154000009 DnaA box-binding interface [nucleotide binding]; other site 596154000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 596154000011 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 596154000012 putative DNA binding surface [nucleotide binding]; other site 596154000013 dimer interface [polypeptide binding]; other site 596154000014 beta-clamp/clamp loader binding surface; other site 596154000015 beta-clamp/translesion DNA polymerase binding surface; other site 596154000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 596154000017 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 596154000018 ATP binding site [chemical binding]; other site 596154000019 Mg2+ binding site [ion binding]; other site 596154000020 G-X-G motif; other site 596154000021 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 596154000022 anchoring element; other site 596154000023 dimer interface [polypeptide binding]; other site 596154000024 ATP binding site [chemical binding]; other site 596154000025 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 596154000026 active site 596154000027 putative metal-binding site [ion binding]; other site 596154000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 596154000029 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 596154000030 non-specific DNA binding site [nucleotide binding]; other site 596154000031 salt bridge; other site 596154000032 sequence-specific DNA binding site [nucleotide binding]; other site 596154000033 Domain of unknown function (DUF955); Region: DUF955; cl01076 596154000034 putative transposase OrfB; Reviewed; Region: PHA02517 596154000035 HTH-like domain; Region: HTH_21; pfam13276 596154000036 Integrase core domain; Region: rve; cl01316 596154000037 Integrase core domain; Region: rve_3; cl15866 596154000038 Helix-turn-helix domains; Region: HTH; cl00088 596154000039 Flagellin N-methylase; Region: FliB; cl00497 596154000040 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000041 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000042 enoyl-CoA hydratase; Provisional; Region: PRK05995 596154000043 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 596154000044 substrate binding site [chemical binding]; other site 596154000045 oxyanion hole (OAH) forming residues; other site 596154000046 trimer interface [polypeptide binding]; other site 596154000047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154000048 Helix-turn-helix domains; Region: HTH; cl00088 596154000049 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 596154000050 dimerization interface [polypeptide binding]; other site 596154000051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000052 NMT1-like family; Region: NMT1_2; cl15260 596154000053 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 596154000054 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 596154000055 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154000056 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154000057 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154000058 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 596154000059 carboxyltransferase (CT) interaction site; other site 596154000060 biotinylation site [posttranslational modification]; other site 596154000061 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000062 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000063 active site 596154000064 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 596154000065 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154000066 Acylphosphatase; Region: Acylphosphatase; cl00551 596154000067 4Fe-4S binding domain; Region: Fer4; cl02805 596154000068 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 596154000069 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 596154000070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000071 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 596154000072 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 596154000073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154000074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154000075 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 596154000076 active site 596154000077 catalytic site [active] 596154000078 substrate binding site [chemical binding]; other site 596154000079 NlpC/P60 family; Region: NLPC_P60; cl11438 596154000080 NeuB family; Region: NeuB; cl00496 596154000081 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 596154000082 GAF domain; Region: GAF; cl15785 596154000083 PAS domain S-box; Region: sensory_box; TIGR00229 596154000084 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 596154000085 GAF domain; Region: GAF_2; pfam13185 596154000086 GAF domain; Region: GAF; cl15785 596154000087 PAS domain S-box; Region: sensory_box; TIGR00229 596154000088 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 596154000089 putative active site [active] 596154000090 heme pocket [chemical binding]; other site 596154000091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154000092 metal binding site [ion binding]; metal-binding site 596154000093 active site 596154000094 I-site; other site 596154000095 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 596154000096 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154000097 Helix-turn-helix domains; Region: HTH; cl00088 596154000098 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154000099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000100 NMT1-like family; Region: NMT1_2; cl15260 596154000101 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000102 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000103 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 596154000104 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 596154000105 FAD binding site [chemical binding]; other site 596154000106 substrate binding site [chemical binding]; other site 596154000107 catalytic base [active] 596154000108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000109 NMT1-like family; Region: NMT1_2; cl15260 596154000110 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 596154000111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000112 CoA-ligase; Region: Ligase_CoA; cl02894 596154000113 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154000114 enoyl-CoA hydratase; Provisional; Region: PRK08290 596154000115 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 596154000116 substrate binding site [chemical binding]; other site 596154000117 oxyanion hole (OAH) forming residues; other site 596154000118 trimer interface [polypeptide binding]; other site 596154000119 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154000120 Helix-turn-helix domains; Region: HTH; cl00088 596154000121 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 596154000122 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 596154000123 Putative exonuclease, RdgC; Region: RdgC; cl01122 596154000124 Nucleoside recognition; Region: Gate; cl00486 596154000125 Nucleoside recognition; Region: Gate; cl00486 596154000126 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 596154000127 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 596154000128 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 596154000129 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 596154000130 DNA binding residues [nucleotide binding] 596154000131 dimer interface [polypeptide binding]; other site 596154000132 copper binding site [ion binding]; other site 596154000133 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 596154000134 metal-binding site [ion binding] 596154000135 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154000136 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 596154000137 metal-binding site [ion binding] 596154000138 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154000139 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 596154000140 motif II; other site 596154000141 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 596154000142 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 596154000143 dimerization interface [polypeptide binding]; other site 596154000144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154000145 dimer interface [polypeptide binding]; other site 596154000146 putative CheW interface [polypeptide binding]; other site 596154000147 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 596154000148 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154000149 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 596154000150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 596154000151 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 596154000152 active site 596154000153 phosphorylation site [posttranslational modification] 596154000154 intermolecular recognition site; other site 596154000155 dimerization interface [polypeptide binding]; other site 596154000156 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 596154000157 DNA binding site [nucleotide binding] 596154000158 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 596154000159 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 596154000160 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 596154000161 dimer interface [polypeptide binding]; other site 596154000162 phosphorylation site [posttranslational modification] 596154000163 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 596154000164 ATP binding site [chemical binding]; other site 596154000165 Mg2+ binding site [ion binding]; other site 596154000166 G-X-G motif; other site 596154000167 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 596154000168 FMN binding site [chemical binding]; other site 596154000169 active site 596154000170 substrate binding site [chemical binding]; other site 596154000171 catalytic residue [active] 596154000172 glutathionine S-transferase; Provisional; Region: PRK10542 596154000173 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 596154000174 C-terminal domain interface [polypeptide binding]; other site 596154000175 GSH binding site (G-site) [chemical binding]; other site 596154000176 dimer interface [polypeptide binding]; other site 596154000177 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 596154000178 dimer interface [polypeptide binding]; other site 596154000179 N-terminal domain interface [polypeptide binding]; other site 596154000180 substrate binding pocket (H-site) [chemical binding]; other site 596154000181 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 596154000182 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 596154000183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000184 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 596154000185 DNA polymerase IV; Provisional; Region: PRK02794 596154000186 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 596154000187 LysE type translocator; Region: LysE; cl00565 596154000188 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 596154000189 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 596154000190 P-loop; other site 596154000191 Magnesium ion binding site [ion binding]; other site 596154000192 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 596154000193 Magnesium ion binding site [ion binding]; other site 596154000194 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 596154000195 ParB-like nuclease domain; Region: ParBc; cl02129 596154000196 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 596154000197 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 596154000198 Cupin domain; Region: Cupin_2; cl09118 596154000199 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 596154000200 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 596154000201 Mechanosensitive ion channel; Region: MS_channel; pfam00924 596154000202 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 596154000203 FAD binding domain; Region: FAD_binding_4; pfam01565 596154000204 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 596154000205 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 596154000206 CoenzymeA binding site [chemical binding]; other site 596154000207 subunit interaction site [polypeptide binding]; other site 596154000208 PHB binding site; other site 596154000209 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 596154000210 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 596154000211 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 596154000212 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 596154000213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154000214 Helix-turn-helix domains; Region: HTH; cl00088 596154000215 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 596154000216 dimerization interface [polypeptide binding]; other site 596154000217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000218 NMT1-like family; Region: NMT1_2; cl15260 596154000219 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154000220 classical (c) SDRs; Region: SDR_c; cd05233 596154000221 NAD(P) binding site [chemical binding]; other site 596154000222 active site 596154000223 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154000224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000225 NAD(P) binding site [chemical binding]; other site 596154000226 active site 596154000227 Uncharacterized conserved protein [Function unknown]; Region: COG2128 596154000228 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154000229 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 596154000230 uracil-xanthine permease; Region: ncs2; TIGR00801 596154000231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000233 hypothetical protein; Provisional; Region: PRK09126 596154000234 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 596154000235 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 596154000236 AMP-binding enzyme; Region: AMP-binding; cl15778 596154000237 Helix-turn-helix domains; Region: HTH; cl00088 596154000238 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 596154000239 dimerization interface [polypeptide binding]; other site 596154000240 substrate binding pocket [chemical binding]; other site 596154000241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000242 NMT1-like family; Region: NMT1_2; cl15260 596154000243 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000244 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000245 active site 596154000246 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000247 enoyl-CoA hydratase; Provisional; Region: PRK09245 596154000248 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 596154000249 substrate binding site [chemical binding]; other site 596154000250 oxyanion hole (OAH) forming residues; other site 596154000251 trimer interface [polypeptide binding]; other site 596154000252 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 596154000253 septum formation inhibitor; Reviewed; Region: PRK01973 596154000254 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 596154000255 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 596154000256 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 596154000257 Switch I; other site 596154000258 Switch II; other site 596154000259 Septum formation topological specificity factor MinE; Region: MinE; cl00538 596154000260 transcriptional regulator; Provisional; Region: PRK10632 596154000261 Helix-turn-helix domains; Region: HTH; cl00088 596154000262 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 596154000263 putative effector binding pocket; other site 596154000264 putative dimerization interface [polypeptide binding]; other site 596154000265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000266 NMT1-like family; Region: NMT1_2; cl15260 596154000267 galactonate dehydratase; Provisional; Region: PRK14017 596154000268 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 596154000269 active site pocket [active] 596154000270 Flavin Reductases; Region: FlaRed; cl00801 596154000271 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154000272 Helix-turn-helix domains; Region: HTH; cl00088 596154000273 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 596154000274 Ligand Binding Site [chemical binding]; other site 596154000275 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 596154000276 active site 596154000277 metal binding site [ion binding]; metal-binding site 596154000278 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 596154000279 Helix-turn-helix domains; Region: HTH; cl00088 596154000280 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 596154000281 substrate binding pocket [chemical binding]; other site 596154000282 dimerization interface [polypeptide binding]; other site 596154000283 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 596154000284 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 596154000285 active site 596154000286 substrate-binding site [chemical binding]; other site 596154000287 metal-binding site [ion binding] 596154000288 GTP binding site [chemical binding]; other site 596154000289 threonine dehydratase; Provisional; Region: PRK07334 596154000290 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 596154000291 tetramer interface [polypeptide binding]; other site 596154000292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154000293 catalytic residue [active] 596154000294 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 596154000295 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 596154000296 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000297 active site 596154000298 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 596154000299 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 596154000300 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154000301 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 596154000302 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154000303 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 596154000304 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 596154000305 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 596154000306 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 596154000307 Helix-turn-helix domains; Region: HTH; cl00088 596154000308 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 596154000309 putative dimerization interface [polypeptide binding]; other site 596154000310 putative substrate binding pocket [chemical binding]; other site 596154000311 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000312 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000313 active site 596154000314 Cupin domain; Region: Cupin_2; cl09118 596154000315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000316 NMT1-like family; Region: NMT1_2; cl15260 596154000317 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 596154000318 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 596154000319 ATP binding site [chemical binding]; other site 596154000320 putative Mg++ binding site [ion binding]; other site 596154000321 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 596154000322 nucleotide binding region [chemical binding]; other site 596154000323 ATP-binding site [chemical binding]; other site 596154000324 RQC domain; Region: RQC; cl09632 596154000325 HRDC domain; Region: HRDC; cl02578 596154000326 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 596154000327 FeS/SAM binding site; other site 596154000328 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 596154000329 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 596154000330 ATP cone domain; Region: ATP-cone; pfam03477 596154000331 Class III ribonucleotide reductase; Region: RNR_III; cd01675 596154000332 effector binding site; other site 596154000333 active site 596154000334 Zn binding site [ion binding]; other site 596154000335 PAS fold; Region: PAS_4; pfam08448 596154000336 PAS domain; Region: PAS_9; pfam13426 596154000337 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 596154000338 putative active site [active] 596154000339 heme pocket [chemical binding]; other site 596154000340 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154000341 metal binding site [ion binding]; metal-binding site 596154000342 active site 596154000343 I-site; other site 596154000344 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 596154000345 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 596154000346 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 596154000347 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 596154000348 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 596154000349 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 596154000350 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 596154000351 Walker A motif; other site 596154000352 ATP binding site [chemical binding]; other site 596154000353 Walker B motif; other site 596154000354 arginine finger; other site 596154000355 Helix-turn-helix domains; Region: HTH; cl00088 596154000356 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 596154000357 heme-binding site [chemical binding]; other site 596154000358 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 596154000359 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 596154000360 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 596154000361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000362 NMT1-like family; Region: NMT1_2; cl15260 596154000363 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 596154000364 AMP-binding enzyme; Region: AMP-binding; cl15778 596154000365 AMP-binding enzyme; Region: AMP-binding; cl15778 596154000366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000367 NMT1-like family; Region: NMT1_2; cl15260 596154000368 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 596154000369 CoenzymeA binding site [chemical binding]; other site 596154000370 subunit interaction site [polypeptide binding]; other site 596154000371 PHB binding site; other site 596154000372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000373 NMT1-like family; Region: NMT1_2; cl15260 596154000374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000375 NMT1-like family; Region: NMT1_2; cl15260 596154000376 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000377 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000378 active site 596154000379 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 596154000380 AMP-binding enzyme; Region: AMP-binding; cl15778 596154000381 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154000382 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 596154000383 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 596154000384 dimer interface [polypeptide binding]; other site 596154000385 active site 596154000386 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 596154000387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000388 NAD(P) binding site [chemical binding]; other site 596154000389 active site 596154000390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000391 NMT1-like family; Region: NMT1_2; cl15260 596154000392 short chain dehydrogenase; Provisional; Region: PRK07576 596154000393 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 596154000394 NAD(P) binding site [chemical binding]; other site 596154000395 substrate binding site [chemical binding]; other site 596154000396 homotetramer interface [polypeptide binding]; other site 596154000397 active site 596154000398 homodimer interface [polypeptide binding]; other site 596154000399 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154000400 Helix-turn-helix domains; Region: HTH; cl00088 596154000401 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154000402 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000403 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000404 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 596154000405 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154000406 thiolase; Provisional; Region: PRK06158 596154000407 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154000408 active site 596154000409 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000410 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000411 active site 596154000412 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 596154000413 AMP-binding enzyme; Region: AMP-binding; cl15778 596154000414 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154000415 enoyl-CoA hydratase; Region: PLN02864 596154000416 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154000417 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 596154000418 dimer interaction site [polypeptide binding]; other site 596154000419 substrate-binding tunnel; other site 596154000420 active site 596154000421 catalytic site [active] 596154000422 substrate binding site [chemical binding]; other site 596154000423 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154000424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000425 NAD(P) binding site [chemical binding]; other site 596154000426 active site 596154000427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000428 NMT1-like family; Region: NMT1_2; cl15260 596154000429 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 596154000430 Helix-turn-helix domains; Region: HTH; cl00088 596154000431 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154000432 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154000433 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 596154000434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000435 NMT1-like family; Region: NMT1_2; cl15260 596154000436 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154000437 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000438 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000439 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000440 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000441 active site 596154000442 Uncharacterized conserved protein [Function unknown]; Region: COG3777 596154000443 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154000444 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154000445 active site 2 [active] 596154000446 active site 1 [active] 596154000447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000448 NAD(P) binding site [chemical binding]; other site 596154000449 short chain dehydrogenase; Provisional; Region: PRK07060 596154000450 active site 596154000451 enoyl-CoA hydratase; Region: PLN02864 596154000452 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154000453 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 596154000454 dimer interaction site [polypeptide binding]; other site 596154000455 substrate-binding tunnel; other site 596154000456 active site 596154000457 catalytic site [active] 596154000458 substrate binding site [chemical binding]; other site 596154000459 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 596154000460 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 596154000461 substrate binding site [chemical binding]; other site 596154000462 oxyanion hole (OAH) forming residues; other site 596154000463 trimer interface [polypeptide binding]; other site 596154000464 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 596154000465 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 596154000466 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 596154000467 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 596154000468 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 596154000469 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 596154000470 dimer interface [polypeptide binding]; other site 596154000471 active site 596154000472 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154000473 Helix-turn-helix domains; Region: HTH; cl00088 596154000474 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 596154000475 putative effector binding pocket; other site 596154000476 dimerization interface [polypeptide binding]; other site 596154000477 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000478 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000479 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 596154000480 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 596154000481 NAD(P) binding site [chemical binding]; other site 596154000482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000483 NMT1-like family; Region: NMT1_2; cl15260 596154000484 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 596154000485 Helix-turn-helix domains; Region: HTH; cl00088 596154000486 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 596154000487 dimerization interface [polypeptide binding]; other site 596154000488 substrate binding pocket [chemical binding]; other site 596154000489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000490 NMT1-like family; Region: NMT1_2; cl15260 596154000491 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 596154000492 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 596154000493 metal binding site [ion binding]; metal-binding site 596154000494 putative dimer interface [polypeptide binding]; other site 596154000495 NMT1-like family; Region: NMT1_2; cl15260 596154000496 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 596154000497 AMP-binding enzyme; Region: AMP-binding; cl15778 596154000498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000499 NMT1-like family; Region: NMT1_2; cl15260 596154000500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000501 NMT1-like family; Region: NMT1_2; cl15260 596154000502 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 596154000503 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 596154000504 metal binding site [ion binding]; metal-binding site 596154000505 putative dimer interface [polypeptide binding]; other site 596154000506 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 596154000507 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154000508 thiolase; Provisional; Region: PRK06158 596154000509 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154000510 active site 596154000511 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000512 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000513 active site 596154000514 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 596154000515 CoenzymeA binding site [chemical binding]; other site 596154000516 subunit interaction site [polypeptide binding]; other site 596154000517 PHB binding site; other site 596154000518 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154000519 Helix-turn-helix domains; Region: HTH; cl00088 596154000520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000521 NMT1-like family; Region: NMT1_2; cl15260 596154000522 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154000523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000524 NAD(P) binding site [chemical binding]; other site 596154000525 active site 596154000526 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000527 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000528 active site 596154000529 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 596154000530 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154000531 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154000532 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000533 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154000534 active site 596154000535 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 596154000536 enoyl-CoA hydratase; Provisional; Region: PRK07468 596154000537 substrate binding site [chemical binding]; other site 596154000538 oxyanion hole (OAH) forming residues; other site 596154000539 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 596154000540 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154000541 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154000542 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154000543 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 596154000544 carboxyltransferase (CT) interaction site; other site 596154000545 biotinylation site [posttranslational modification]; other site 596154000546 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 596154000547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000548 NMT1-like family; Region: NMT1_2; cl15260 596154000549 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000550 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154000552 Helix-turn-helix domains; Region: HTH; cl00088 596154000553 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 596154000554 putative dimerization interface [polypeptide binding]; other site 596154000555 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000556 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154000558 Helix-turn-helix domains; Region: HTH; cl00088 596154000559 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 596154000560 putative dimerization interface [polypeptide binding]; other site 596154000561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000562 NMT1-like family; Region: NMT1_2; cl15260 596154000563 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000564 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000565 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 596154000566 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 596154000567 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 596154000568 NAD(P) binding site [chemical binding]; other site 596154000569 Predicted membrane protein [Function unknown]; Region: COG4125 596154000570 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 596154000571 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 596154000572 SdiA-regulated; Region: SdiA-regulated; pfam06977 596154000573 SdiA-regulated; Region: SdiA-regulated; cd09971 596154000574 putative active site [active] 596154000575 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 596154000576 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 596154000577 substrate binding pocket [chemical binding]; other site 596154000578 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 596154000579 B12 binding site [chemical binding]; other site 596154000580 cobalt ligand [ion binding]; other site 596154000581 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 596154000582 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 596154000583 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 596154000584 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 596154000585 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 596154000586 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 596154000587 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154000588 Integrase core domain; Region: rve; cl01316 596154000589 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 596154000590 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154000591 Helix-turn-helix domains; Region: HTH; cl00088 596154000592 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 596154000593 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 596154000594 Walker A motif; other site 596154000595 ATP binding site [chemical binding]; other site 596154000596 Walker B motif; other site 596154000597 arginine finger; other site 596154000598 shikimate kinase; Reviewed; Region: aroK; PRK00131 596154000599 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 596154000600 ADP binding site [chemical binding]; other site 596154000601 magnesium binding site [ion binding]; other site 596154000602 putative shikimate binding site; other site 596154000603 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 596154000604 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 596154000605 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 596154000606 FAD binding pocket [chemical binding]; other site 596154000607 FAD binding motif [chemical binding]; other site 596154000608 phosphate binding motif [ion binding]; other site 596154000609 beta-alpha-beta structure motif; other site 596154000610 NAD binding pocket [chemical binding]; other site 596154000611 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 596154000612 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154000613 putative ligand binding site [chemical binding]; other site 596154000614 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 596154000615 TM-ABC transporter signature motif; other site 596154000616 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 596154000617 TM-ABC transporter signature motif; other site 596154000618 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154000619 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 596154000620 Walker A/P-loop; other site 596154000621 ATP binding site [chemical binding]; other site 596154000622 Q-loop/lid; other site 596154000623 ABC transporter signature motif; other site 596154000624 Walker B; other site 596154000625 D-loop; other site 596154000626 H-loop/switch region; other site 596154000627 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154000628 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 596154000629 Walker A/P-loop; other site 596154000630 ATP binding site [chemical binding]; other site 596154000631 Q-loop/lid; other site 596154000632 ABC transporter signature motif; other site 596154000633 Walker B; other site 596154000634 D-loop; other site 596154000635 H-loop/switch region; other site 596154000636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 596154000637 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 596154000638 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 596154000639 active site 596154000640 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 596154000641 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 596154000642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154000643 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 596154000644 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 596154000645 Nitrogen regulatory protein P-II; Region: P-II; cl00412 596154000646 Nitrogen regulatory protein P-II; Region: P-II; smart00938 596154000647 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 596154000648 Helix-turn-helix domains; Region: HTH; cl00088 596154000649 transposase/IS protein; Provisional; Region: PRK09183 596154000650 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 596154000651 Walker A motif; other site 596154000652 ATP binding site [chemical binding]; other site 596154000653 Walker B motif; other site 596154000654 arginine finger; other site 596154000655 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 596154000656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000657 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154000658 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 596154000659 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 596154000660 Putative ammonia monooxygenase; Region: AmoA; pfam05145 596154000661 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 596154000662 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000663 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154000664 active site 596154000665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000666 NMT1-like family; Region: NMT1_2; cl15260 596154000667 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 596154000668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000669 CoA-ligase; Region: Ligase_CoA; cl02894 596154000670 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154000671 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 596154000672 FAD binding domain; Region: FAD_binding_4; pfam01565 596154000673 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 596154000674 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 596154000675 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 596154000676 Cysteine-rich domain; Region: CCG; pfam02754 596154000677 Cysteine-rich domain; Region: CCG; pfam02754 596154000678 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 596154000679 putative RNA binding sites [nucleotide binding]; other site 596154000680 EamA-like transporter family; Region: EamA; cl01037 596154000681 lysophospholipid transporter LplT; Provisional; Region: PRK11195 596154000682 alanine racemase; Reviewed; Region: dadX; PRK03646 596154000683 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 596154000684 active site 596154000685 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 596154000686 substrate binding site [chemical binding]; other site 596154000687 catalytic residues [active] 596154000688 dimer interface [polypeptide binding]; other site 596154000689 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 596154000690 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 596154000691 glutathionine S-transferase; Provisional; Region: PRK10542 596154000692 C-terminal domain interface [polypeptide binding]; other site 596154000693 GSH binding site (G-site) [chemical binding]; other site 596154000694 dimer interface [polypeptide binding]; other site 596154000695 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 596154000696 dimer interface [polypeptide binding]; other site 596154000697 N-terminal domain interface [polypeptide binding]; other site 596154000698 substrate binding pocket (H-site) [chemical binding]; other site 596154000699 DNA repair protein RadA; Provisional; Region: PRK11823 596154000700 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 596154000701 Walker A motif/ATP binding site; other site 596154000702 ATP binding site [chemical binding]; other site 596154000703 Walker B motif; other site 596154000704 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 596154000705 NMT1-like family; Region: NMT1_2; cl15260 596154000706 putative amidase; Provisional; Region: PRK06169 596154000707 Amidase; Region: Amidase; cl11426 596154000708 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 596154000709 homodimer interface [polypeptide binding]; other site 596154000710 substrate-cofactor binding pocket; other site 596154000711 catalytic residue [active] 596154000712 Zinc-finger domain; Region: zf-CHCC; cl01821 596154000713 O-Antigen ligase; Region: Wzy_C; cl04850 596154000714 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 596154000715 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 596154000716 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 596154000717 putative ADP-binding pocket [chemical binding]; other site 596154000718 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 596154000719 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 596154000720 active site 596154000721 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 596154000722 Nitronate monooxygenase; Region: NMO; pfam03060 596154000723 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 596154000724 FMN binding site [chemical binding]; other site 596154000725 substrate binding site [chemical binding]; other site 596154000726 putative catalytic residue [active] 596154000727 Helix-turn-helix domains; Region: HTH; cl00088 596154000728 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 596154000729 dimerization interface [polypeptide binding]; other site 596154000730 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 596154000731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 596154000732 MOSC domain; Region: MOSC; pfam03473 596154000733 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154000734 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 596154000735 putative hydrophobic ligand binding site [chemical binding]; other site 596154000736 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 596154000737 active site 596154000738 catalytic site [active] 596154000739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000740 NMT1-like family; Region: NMT1_2; cl15260 596154000741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154000742 Helix-turn-helix domains; Region: HTH; cl00088 596154000743 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 596154000744 dimerization interface [polypeptide binding]; other site 596154000745 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154000746 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154000747 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 596154000748 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 596154000749 dimer interface [polypeptide binding]; other site 596154000750 phosphorylation site [posttranslational modification] 596154000751 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 596154000752 ATP binding site [chemical binding]; other site 596154000753 Mg2+ binding site [ion binding]; other site 596154000754 G-X-G motif; other site 596154000755 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 596154000756 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 596154000757 active site 596154000758 phosphorylation site [posttranslational modification] 596154000759 intermolecular recognition site; other site 596154000760 dimerization interface [polypeptide binding]; other site 596154000761 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 596154000762 DNA binding site [nucleotide binding] 596154000763 AmpG-related permease; Region: 2A0125; TIGR00901 596154000764 muropeptide transporter; Validated; Region: ampG; PRK11010 596154000765 Cupin domain; Region: Cupin_2; cl09118 596154000766 Peptidase family M48; Region: Peptidase_M48; cl12018 596154000767 Transcriptional regulators [Transcription]; Region: GntR; COG1802 596154000768 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154000769 DNA-binding site [nucleotide binding]; DNA binding site 596154000770 FCD domain; Region: FCD; cl11656 596154000771 Activator of aromatic catabolism; Region: XylR_N; pfam06505 596154000772 Heme NO binding; Region: HNOB; cl15268 596154000773 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 596154000774 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 596154000775 Walker A motif; other site 596154000776 ATP binding site [chemical binding]; other site 596154000777 Walker B motif; other site 596154000778 arginine finger; other site 596154000779 Helix-turn-helix domains; Region: HTH; cl00088 596154000780 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 596154000781 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 596154000782 dimerization interface [polypeptide binding]; other site 596154000783 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 596154000784 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 596154000785 dimerization interface [polypeptide binding]; other site 596154000786 putative path to active site cavity [active] 596154000787 diiron center [ion binding]; other site 596154000788 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 596154000789 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 596154000790 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 596154000791 catalytic loop [active] 596154000792 iron binding site [ion binding]; other site 596154000793 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H...; Region: phenol_2-monooxygenase_like; cd06211 596154000794 FAD binding pocket [chemical binding]; other site 596154000795 FAD binding motif [chemical binding]; other site 596154000796 phosphate binding motif [ion binding]; other site 596154000797 beta-alpha-beta structure motif; other site 596154000798 NAD binding pocket [chemical binding]; other site 596154000799 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 596154000800 catalytic loop [active] 596154000801 iron binding site [ion binding]; other site 596154000802 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 596154000803 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 596154000804 tetramer interface [polypeptide binding]; other site 596154000805 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 596154000806 active site 596154000807 metal binding site [ion binding]; metal-binding site 596154000808 Domain of unknown function (DUF336); Region: DUF336; cl01249 596154000809 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 596154000810 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154000811 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 596154000812 NAD binding site [chemical binding]; other site 596154000813 catalytic residues [active] 596154000814 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 596154000815 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 596154000816 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154000817 acetaldehyde dehydrogenase; Validated; Region: PRK08300 596154000818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000819 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 596154000820 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 596154000821 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 596154000822 active site 596154000823 catalytic residues [active] 596154000824 metal binding site [ion binding]; metal-binding site 596154000825 DmpG-like communication domain; Region: DmpG_comm; pfam07836 596154000826 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154000827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000828 NMT1-like family; Region: NMT1_2; cl15260 596154000829 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; cd00491 596154000830 active site 1 [active] 596154000831 dimer interface [polypeptide binding]; other site 596154000832 hexamer interface [polypeptide binding]; other site 596154000833 active site 2 [active] 596154000834 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154000835 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154000836 Helix-turn-helix domains; Region: HTH; cl00088 596154000837 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154000838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000839 NMT1-like family; Region: NMT1_2; cl15260 596154000840 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154000841 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 596154000842 active site 596154000843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000844 NMT1-like family; Region: NMT1_2; cl15260 596154000845 hypothetical protein; Validated; Region: PRK06201 596154000846 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154000847 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 596154000848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000850 NMT1-like family; Region: NMT1_2; cl15260 596154000851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000852 NMT1-like family; Region: NMT1_2; cl15260 596154000853 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154000854 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 596154000855 active site 596154000856 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 596154000857 Strictosidine synthase; Region: Str_synth; pfam03088 596154000858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000859 NMT1-like family; Region: NMT1_2; cl15260 596154000860 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 596154000861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000862 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 596154000863 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154000864 NAD(P) binding site [chemical binding]; other site 596154000865 catalytic residues [active] 596154000866 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154000867 Helix-turn-helix domains; Region: HTH; cl00088 596154000868 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154000869 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154000870 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154000871 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 596154000872 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 596154000873 TM-ABC transporter signature motif; other site 596154000874 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 596154000875 TM-ABC transporter signature motif; other site 596154000876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154000877 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 596154000878 Walker A/P-loop; other site 596154000879 ATP binding site [chemical binding]; other site 596154000880 Q-loop/lid; other site 596154000881 ABC transporter signature motif; other site 596154000882 Walker B; other site 596154000883 D-loop; other site 596154000884 H-loop/switch region; other site 596154000885 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154000886 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 596154000887 Walker A/P-loop; other site 596154000888 ATP binding site [chemical binding]; other site 596154000889 Q-loop/lid; other site 596154000890 ABC transporter signature motif; other site 596154000891 Walker B; other site 596154000892 D-loop; other site 596154000893 H-loop/switch region; other site 596154000894 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154000895 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 596154000896 Transcriptional regulators [Transcription]; Region: GntR; COG1802 596154000897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154000898 DNA-binding site [nucleotide binding]; DNA binding site 596154000899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154000900 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154000901 active site 596154000902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154000903 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154000904 NAD(P) binding site [chemical binding]; other site 596154000905 active site 596154000906 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 596154000907 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 596154000908 putative active site [active] 596154000909 putative substrate binding site [chemical binding]; other site 596154000910 ATP binding site [chemical binding]; other site 596154000911 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 596154000912 putative active site [active] 596154000913 putative DNA binding site [nucleotide binding]; other site 596154000914 putative phosphate binding site [ion binding]; other site 596154000915 putative catalytic site [active] 596154000916 metal binding site A [ion binding]; metal-binding site 596154000917 putative AP binding site [nucleotide binding]; other site 596154000918 putative metal binding site B [ion binding]; other site 596154000919 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 596154000920 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154000921 active site 596154000922 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 596154000923 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 596154000924 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 596154000925 GatB domain; Region: GatB_Yqey; cl11497 596154000926 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 596154000927 Amidase; Region: Amidase; cl11426 596154000928 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 596154000929 rod shape-determining protein MreB; Provisional; Region: PRK13927 596154000930 Cell division protein FtsA; Region: FtsA; cl11496 596154000931 rod shape-determining protein MreC; Provisional; Region: PRK13922 596154000932 rod shape-determining protein MreC; Region: MreC; pfam04085 596154000933 rod shape-determining protein MreD; Region: MreD; cl01087 596154000934 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 596154000935 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 596154000936 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154000937 Arginase family; Region: Arginase; cl00306 596154000938 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 596154000939 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 596154000940 choline dehydrogenase; Validated; Region: PRK02106 596154000941 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 596154000942 Permease; Region: Permease; cl00510 596154000943 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 596154000944 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 596154000945 Walker A/P-loop; other site 596154000946 ATP binding site [chemical binding]; other site 596154000947 Q-loop/lid; other site 596154000948 ABC transporter signature motif; other site 596154000949 Walker B; other site 596154000950 D-loop; other site 596154000951 H-loop/switch region; other site 596154000952 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 596154000953 mce related protein; Region: MCE; pfam02470 596154000954 Protein of unknown function (DUF330); Region: DUF330; cl01135 596154000955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154000956 Helix-turn-helix domains; Region: HTH; cl00088 596154000957 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 596154000958 putative dimerization interface [polypeptide binding]; other site 596154000959 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 596154000960 substrate binding site [chemical binding]; other site 596154000961 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 596154000962 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 596154000963 substrate binding site [chemical binding]; other site 596154000964 ligand binding site [chemical binding]; other site 596154000965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154000966 NMT1-like family; Region: NMT1_2; cl15260 596154000967 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154000968 MarC family integral membrane protein; Region: MarC; cl00919 596154000969 Dienelactone hydrolase family; Region: DLH; pfam01738 596154000970 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 596154000971 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 596154000972 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 596154000973 putative substrate translocation pore; other site 596154000974 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 596154000975 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 596154000976 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 596154000977 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154000978 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 596154000979 Helix-turn-helix domains; Region: HTH; cl00088 596154000980 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 596154000981 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 596154000982 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 596154000983 dimer interface [polypeptide binding]; other site 596154000984 allosteric magnesium binding site [ion binding]; other site 596154000985 active site 596154000986 aspartate-rich active site metal binding site; other site 596154000987 Schiff base residues; other site 596154000988 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 596154000989 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 596154000990 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 596154000991 dimer interface [polypeptide binding]; other site 596154000992 [2Fe-2S] cluster binding site [ion binding]; other site 596154000993 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 596154000994 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 596154000995 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 596154000996 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154000997 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 596154000998 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 596154000999 S17 interaction site [polypeptide binding]; other site 596154001000 S8 interaction site; other site 596154001001 16S rRNA interaction site [nucleotide binding]; other site 596154001002 streptomycin interaction site [chemical binding]; other site 596154001003 23S rRNA interaction site [nucleotide binding]; other site 596154001004 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 596154001005 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 596154001006 elongation factor G; Reviewed; Region: PRK00007 596154001007 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 596154001008 G1 box; other site 596154001009 putative GEF interaction site [polypeptide binding]; other site 596154001010 GTP/Mg2+ binding site [chemical binding]; other site 596154001011 Switch I region; other site 596154001012 G2 box; other site 596154001013 G3 box; other site 596154001014 Switch II region; other site 596154001015 G4 box; other site 596154001016 G5 box; other site 596154001017 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 596154001018 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 596154001019 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 596154001020 elongation factor Tu; Reviewed; Region: PRK00049 596154001021 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 596154001022 G1 box; other site 596154001023 GEF interaction site [polypeptide binding]; other site 596154001024 GTP/Mg2+ binding site [chemical binding]; other site 596154001025 Switch I region; other site 596154001026 G2 box; other site 596154001027 G3 box; other site 596154001028 Switch II region; other site 596154001029 G4 box; other site 596154001030 G5 box; other site 596154001031 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 596154001032 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 596154001033 Antibiotic Binding Site [chemical binding]; other site 596154001034 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 596154001035 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 596154001036 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 596154001037 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 596154001038 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 596154001039 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 596154001040 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 596154001041 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 596154001042 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 596154001043 putative translocon binding site; other site 596154001044 protein-rRNA interface [nucleotide binding]; other site 596154001045 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 596154001046 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 596154001047 G-X-X-G motif; other site 596154001048 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 596154001049 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 596154001050 23S rRNA interface [nucleotide binding]; other site 596154001051 5S rRNA interface [nucleotide binding]; other site 596154001052 putative antibiotic binding site [chemical binding]; other site 596154001053 L25 interface [polypeptide binding]; other site 596154001054 L27 interface [polypeptide binding]; other site 596154001055 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 596154001056 23S rRNA interface [nucleotide binding]; other site 596154001057 putative translocon interaction site; other site 596154001058 signal recognition particle (SRP54) interaction site; other site 596154001059 L23 interface [polypeptide binding]; other site 596154001060 trigger factor interaction site; other site 596154001061 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 596154001062 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 596154001063 catalytic triad [active] 596154001064 dimer interface [polypeptide binding]; other site 596154001065 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 596154001066 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 596154001067 Coenzyme A binding pocket [chemical binding]; other site 596154001068 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 596154001069 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 596154001070 catalytic residues [active] 596154001071 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 596154001072 active pocket/dimerization site; other site 596154001073 active site 596154001074 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 596154001075 dimerization domain swap beta strand [polypeptide binding]; other site 596154001076 regulatory protein interface [polypeptide binding]; other site 596154001077 active site 596154001078 regulatory phosphorylation site [posttranslational modification]; other site 596154001079 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 596154001080 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 596154001081 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 596154001082 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 596154001083 lipoyl synthase; Provisional; Region: PRK05481 596154001084 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 596154001085 FeS/SAM binding site; other site 596154001086 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 596154001087 Protein of unknown function (DUF493); Region: DUF493; cl01102 596154001088 ATP synthase A chain; Region: ATP-synt_A; cl00413 596154001089 ATP synthase subunit C; Region: ATP-synt_C; cl00466 596154001090 Plant ATP synthase F0; Region: YMF19; cl07975 596154001091 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 596154001092 Plant ATP synthase F0; Region: YMF19; cl07975 596154001093 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 596154001094 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 596154001095 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 596154001096 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 596154001097 beta subunit interaction interface [polypeptide binding]; other site 596154001098 Walker A motif; other site 596154001099 ATP binding site [chemical binding]; other site 596154001100 Walker B motif; other site 596154001101 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 596154001102 ATP synthase; Region: ATP-synt; cl00365 596154001103 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 596154001104 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 596154001105 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 596154001106 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 596154001107 alpha subunit interaction interface [polypeptide binding]; other site 596154001108 Walker A motif; other site 596154001109 ATP binding site [chemical binding]; other site 596154001110 Walker B motif; other site 596154001111 inhibitor binding site; inhibition site 596154001112 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 596154001113 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 596154001114 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 596154001115 Helix-turn-helix domains; Region: HTH; cl00088 596154001116 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154001117 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 596154001118 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154001119 Integrase core domain; Region: rve; cl01316 596154001120 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 596154001121 Repair protein; Region: Repair_PSII; cl01535 596154001122 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 596154001123 Repair protein; Region: Repair_PSII; cl01535 596154001124 LemA family; Region: LemA; cl00742 596154001125 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 596154001126 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 596154001127 Cytochrome c; Region: Cytochrom_C; cl11414 596154001128 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154001129 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 596154001130 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 596154001131 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 596154001132 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 596154001133 Helix-turn-helix domains; Region: HTH; cl00088 596154001134 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 596154001135 elongation factor Tu; Reviewed; Region: PRK00049 596154001136 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 596154001137 G1 box; other site 596154001138 GEF interaction site [polypeptide binding]; other site 596154001139 GTP/Mg2+ binding site [chemical binding]; other site 596154001140 Switch I region; other site 596154001141 G2 box; other site 596154001142 G3 box; other site 596154001143 Switch II region; other site 596154001144 G4 box; other site 596154001145 G5 box; other site 596154001146 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 596154001147 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 596154001148 Antibiotic Binding Site [chemical binding]; other site 596154001149 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 596154001150 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 596154001151 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 596154001152 putative homodimer interface [polypeptide binding]; other site 596154001153 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 596154001154 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 596154001155 23S rRNA interface [nucleotide binding]; other site 596154001156 L7/L12 interface [polypeptide binding]; other site 596154001157 putative thiostrepton binding site; other site 596154001158 L25 interface [polypeptide binding]; other site 596154001159 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 596154001160 mRNA/rRNA interface [nucleotide binding]; other site 596154001161 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 596154001162 23S rRNA interface [nucleotide binding]; other site 596154001163 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 596154001164 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 596154001165 peripheral dimer interface [polypeptide binding]; other site 596154001166 core dimer interface [polypeptide binding]; other site 596154001167 L10 interface [polypeptide binding]; other site 596154001168 L11 interface [polypeptide binding]; other site 596154001169 putative EF-Tu interaction site [polypeptide binding]; other site 596154001170 putative EF-G interaction site [polypeptide binding]; other site 596154001171 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 596154001172 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 596154001173 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 596154001174 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 596154001175 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 596154001176 RPB11 interaction site [polypeptide binding]; other site 596154001177 RPB12 interaction site [polypeptide binding]; other site 596154001178 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 596154001179 RPB3 interaction site [polypeptide binding]; other site 596154001180 RPB1 interaction site [polypeptide binding]; other site 596154001181 RPB11 interaction site [polypeptide binding]; other site 596154001182 RPB10 interaction site [polypeptide binding]; other site 596154001183 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 596154001184 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 596154001185 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 596154001186 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 596154001187 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 596154001188 DNA-directed RNA polymerase subunit A''; Validated; Region: PRK04309 596154001189 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 596154001190 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 596154001191 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 596154001192 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 596154001193 DNA binding site [nucleotide binding] 596154001194 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 596154001195 LemA family; Region: LemA; cl00742 596154001196 16S rRNA methyltransferase B; Provisional; Region: PRK10901 596154001197 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 596154001198 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 596154001199 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 596154001200 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 596154001201 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 596154001202 dimerization interface [polypeptide binding]; other site 596154001203 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 596154001204 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 596154001205 dimer interface [polypeptide binding]; other site 596154001206 phosphorylation site [posttranslational modification] 596154001207 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 596154001208 ATP binding site [chemical binding]; other site 596154001209 Mg2+ binding site [ion binding]; other site 596154001210 G-X-G motif; other site 596154001211 Response regulator receiver domain; Region: Response_reg; pfam00072 596154001212 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 596154001213 active site 596154001214 phosphorylation site [posttranslational modification] 596154001215 intermolecular recognition site; other site 596154001216 dimerization interface [polypeptide binding]; other site 596154001217 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 596154001218 Helix-turn-helix domains; Region: HTH; cl00088 596154001219 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 596154001220 putative transposase OrfB; Reviewed; Region: PHA02517 596154001221 HTH-like domain; Region: HTH_21; pfam13276 596154001222 Integrase core domain; Region: rve; cl01316 596154001223 Integrase core domain; Region: rve_3; cl15866 596154001224 Helix-turn-helix domains; Region: HTH; cl00088 596154001225 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 596154001226 oligomerization interface [polypeptide binding]; other site 596154001227 AAA domain; Region: AAA_25; pfam13481 596154001228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154001229 Walker A motif; other site 596154001230 ATP binding site [chemical binding]; other site 596154001231 Walker B motif; other site 596154001232 CHC2 zinc finger; Region: zf-CHC2; cl15369 596154001233 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154001234 integrase; Provisional; Region: PRK09692 596154001235 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 596154001236 active site 596154001237 Int/Topo IB signature motif; other site 596154001238 Helix-turn-helix domains; Region: HTH; cl00088 596154001239 Winged helix-turn helix; Region: HTH_29; pfam13551 596154001240 Integrase core domain; Region: rve; cl01316 596154001241 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 596154001242 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 596154001243 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 596154001244 putative NAD(P) binding site [chemical binding]; other site 596154001245 active site 596154001246 putative substrate binding site [chemical binding]; other site 596154001247 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 596154001248 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 596154001249 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 596154001250 Ligand binding site; other site 596154001251 Putative Catalytic site; other site 596154001252 DXD motif; other site 596154001253 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 596154001254 Predicted methyltransferases [General function prediction only]; Region: COG0313 596154001255 Restriction endonuclease; Region: Mrr_cat; cl00516 596154001256 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 596154001257 dimer interface [polypeptide binding]; other site 596154001258 active site 596154001259 outer membrane lipoprotein; Provisional; Region: PRK11023 596154001260 BON domain; Region: BON; cl02771 596154001261 BON domain; Region: BON; cl02771 596154001262 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 596154001263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154001264 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 596154001265 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 596154001266 Walker A motif; other site 596154001267 ATP binding site [chemical binding]; other site 596154001268 Walker B motif; other site 596154001269 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 596154001270 ligand binding site [chemical binding]; other site 596154001271 flexible hinge region; other site 596154001272 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 596154001273 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 596154001274 Walker A motif; other site 596154001275 ATP binding site [chemical binding]; other site 596154001276 Walker B motif; other site 596154001277 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 596154001278 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 596154001279 catalytic residue [active] 596154001280 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 596154001281 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154001282 catalytic residue [active] 596154001283 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 596154001284 Protein of unknown function (DUF445); Region: DUF445; pfam04286 596154001285 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 596154001286 FAD binding domain; Region: FAD_binding_4; pfam01565 596154001287 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 596154001288 Helix-turn-helix domains; Region: HTH; cl00088 596154001289 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 596154001290 dimerization interface [polypeptide binding]; other site 596154001291 substrate binding pocket [chemical binding]; other site 596154001292 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 596154001293 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 596154001294 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 596154001295 putative active site [active] 596154001296 putative substrate binding site [chemical binding]; other site 596154001297 putative cosubstrate binding site; other site 596154001298 catalytic site [active] 596154001299 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 596154001300 PAS domain; Region: PAS_9; pfam13426 596154001301 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 596154001302 PAS fold; Region: PAS_3; pfam08447 596154001303 putative active site [active] 596154001304 heme pocket [chemical binding]; other site 596154001305 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 596154001306 PAS domain; Region: PAS_9; pfam13426 596154001307 putative active site [active] 596154001308 heme pocket [chemical binding]; other site 596154001309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154001310 metal binding site [ion binding]; metal-binding site 596154001311 active site 596154001312 I-site; other site 596154001313 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 596154001314 Protein of unknown function, DUF399; Region: DUF399; cl01139 596154001315 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 596154001316 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 596154001317 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 596154001318 active site 596154001319 dimer interface [polypeptide binding]; other site 596154001320 effector binding site; other site 596154001321 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 596154001322 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 596154001323 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 596154001324 dimerization interface [polypeptide binding]; other site 596154001325 GAF domain; Region: GAF; cl15785 596154001326 Histidine kinase; Region: HisKA_3; pfam07730 596154001327 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 596154001328 ATP binding site [chemical binding]; other site 596154001329 Mg2+ binding site [ion binding]; other site 596154001330 G-X-G motif; other site 596154001331 transcriptional regulator NarL; Provisional; Region: PRK10651 596154001332 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 596154001333 active site 596154001334 phosphorylation site [posttranslational modification] 596154001335 intermolecular recognition site; other site 596154001336 dimerization interface [polypeptide binding]; other site 596154001337 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 596154001338 DNA binding residues [nucleotide binding] 596154001339 dimerization interface [polypeptide binding]; other site 596154001340 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 596154001341 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 596154001342 putative substrate translocation pore; other site 596154001343 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 596154001344 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 596154001345 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 596154001346 [4Fe-4S] binding site [ion binding]; other site 596154001347 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 596154001348 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 596154001349 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 596154001350 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 596154001351 molybdopterin cofactor binding site; other site 596154001352 nitrate reductase, beta subunit; Region: narH; TIGR01660 596154001353 4Fe-4S binding domain; Region: Fer4; cl02805 596154001354 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 596154001355 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 596154001356 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 596154001357 PPIC-type PPIASE domain; Region: Rotamase; cl08278 596154001358 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 596154001359 active site clefts [active] 596154001360 zinc binding site [ion binding]; other site 596154001361 dimer interface [polypeptide binding]; other site 596154001362 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 596154001363 putative FMN binding site [chemical binding]; other site 596154001364 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 596154001365 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 596154001366 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 596154001367 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 596154001368 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154001369 TPR repeat; Region: TPR_11; pfam13414 596154001370 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 596154001371 binding surface 596154001372 TPR motif; other site 596154001373 TPR repeat; Region: TPR_11; pfam13414 596154001374 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 596154001375 binding surface 596154001376 TPR repeat; Region: TPR_11; pfam13414 596154001377 TPR motif; other site 596154001378 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 596154001379 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 596154001380 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 596154001381 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 596154001382 putative [4Fe-4S] binding site [ion binding]; other site 596154001383 putative molybdopterin cofactor binding site [chemical binding]; other site 596154001384 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 596154001385 molybdopterin cofactor binding site; other site 596154001386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154001387 NMT1-like family; Region: NMT1_2; cl15260 596154001388 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 596154001389 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154001390 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154001391 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 596154001392 putative active site [active] 596154001393 putative catalytic site [active] 596154001394 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154001395 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154001396 active site 596154001397 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 596154001398 putative active site [active] 596154001399 putative catalytic site [active] 596154001400 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154001401 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 596154001402 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154001403 Helix-turn-helix domains; Region: HTH; cl00088 596154001404 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154001405 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 596154001406 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 596154001407 metal binding site [ion binding]; metal-binding site 596154001408 putative dimer interface [polypeptide binding]; other site 596154001409 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 596154001410 acyl-CoA binding pocket [chemical binding]; other site 596154001411 CoA binding site [chemical binding]; other site 596154001412 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 596154001413 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 596154001414 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 596154001415 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 596154001416 S-adenosylmethionine binding site [chemical binding]; other site 596154001417 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 596154001418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154001419 NMT1-like family; Region: NMT1_2; cl15260 596154001420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154001421 NMT1-like family; Region: NMT1_2; cl15260 596154001422 AMP-binding enzyme; Region: AMP-binding; cl15778 596154001423 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154001424 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 596154001425 Walker A/P-loop; other site 596154001426 ATP binding site [chemical binding]; other site 596154001427 Q-loop/lid; other site 596154001428 ABC transporter signature motif; other site 596154001429 Walker B; other site 596154001430 D-loop; other site 596154001431 H-loop/switch region; other site 596154001432 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 596154001433 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154001434 putative ligand binding site [chemical binding]; other site 596154001435 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 596154001436 TM-ABC transporter signature motif; other site 596154001437 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 596154001438 TM-ABC transporter signature motif; other site 596154001439 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154001440 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 596154001441 Walker A/P-loop; other site 596154001442 ATP binding site [chemical binding]; other site 596154001443 Q-loop/lid; other site 596154001444 ABC transporter signature motif; other site 596154001445 Walker B; other site 596154001446 D-loop; other site 596154001447 H-loop/switch region; other site 596154001448 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 596154001449 AMP-binding enzyme; Region: AMP-binding; cl15778 596154001450 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 596154001451 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 596154001452 Walker A motif; other site 596154001453 ATP binding site [chemical binding]; other site 596154001454 Walker B motif; other site 596154001455 arginine finger; other site 596154001456 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 596154001457 ligand binding site [chemical binding]; other site 596154001458 flexible hinge region; other site 596154001459 Helix-turn-helix domains; Region: HTH; cl00088 596154001460 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 596154001461 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 596154001462 RNA binding surface [nucleotide binding]; other site 596154001463 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 596154001464 active site 596154001465 heat shock protein 90; Provisional; Region: PRK05218 596154001466 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 596154001467 ATP binding site [chemical binding]; other site 596154001468 Mg2+ binding site [ion binding]; other site 596154001469 G-X-G motif; other site 596154001470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154001471 NMT1-like family; Region: NMT1_2; cl15260 596154001472 Phosphotransferase enzyme family; Region: APH; pfam01636 596154001473 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154001474 active site 596154001475 ATP binding site [chemical binding]; other site 596154001476 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 596154001477 Catalytic domain of Protein Kinases; Region: PKc; cd00180 596154001478 active site 596154001479 ATP binding site [chemical binding]; other site 596154001480 substrate binding site [chemical binding]; other site 596154001481 activation loop (A-loop); other site 596154001482 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 596154001483 Ligand Binding Site [chemical binding]; other site 596154001484 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 596154001485 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 596154001486 active site 596154001487 metal binding site [ion binding]; metal-binding site 596154001488 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154001489 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154001490 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 596154001491 active site 596154001492 catalytic site [active] 596154001493 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 596154001494 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 596154001495 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154001496 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154001497 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154001498 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 596154001499 active site 596154001500 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 596154001501 homotrimer interaction site [polypeptide binding]; other site 596154001502 putative active site [active] 596154001503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154001504 NMT1-like family; Region: NMT1_2; cl15260 596154001505 Flavin Reductases; Region: FlaRed; cl00801 596154001506 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154001507 Helix-turn-helix domains; Region: HTH; cl00088 596154001508 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154001509 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 596154001510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154001511 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154001512 choline dehydrogenase; Validated; Region: PRK02106 596154001513 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 596154001514 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154001515 nodulation ABC transporter NodI; Provisional; Region: PRK13537 596154001516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154001517 Walker A/P-loop; other site 596154001518 ATP binding site [chemical binding]; other site 596154001519 Q-loop/lid; other site 596154001520 ABC transporter signature motif; other site 596154001521 Walker B; other site 596154001522 D-loop; other site 596154001523 H-loop/switch region; other site 596154001524 Tannase and feruloyl esterase; Region: Tannase; pfam07519 596154001525 AMP nucleosidase; Provisional; Region: PRK08292 596154001526 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 596154001527 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 596154001528 PAS fold; Region: PAS_4; pfam08448 596154001529 PAS domain S-box; Region: sensory_box; TIGR00229 596154001530 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 596154001531 putative active site [active] 596154001532 heme pocket [chemical binding]; other site 596154001533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154001534 metal binding site [ion binding]; metal-binding site 596154001535 active site 596154001536 I-site; other site 596154001537 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 596154001538 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 596154001539 Cation efflux family; Region: Cation_efflux; cl00316 596154001540 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 596154001541 putative active site [active] 596154001542 dimerization interface [polypeptide binding]; other site 596154001543 putative tRNAtyr binding site [nucleotide binding]; other site 596154001544 Helix-turn-helix domains; Region: HTH; cl00088 596154001545 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 596154001546 dimerization interface [polypeptide binding]; other site 596154001547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154001548 NMT1-like family; Region: NMT1_2; cl15260 596154001549 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154001550 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154001551 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 596154001552 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 596154001553 NADP binding site [chemical binding]; other site 596154001554 dimer interface [polypeptide binding]; other site 596154001555 acyl-CoA synthetase; Validated; Region: PRK06188 596154001556 AMP-binding enzyme; Region: AMP-binding; cl15778 596154001557 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 596154001558 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 596154001559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154001560 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 596154001561 RuvA N terminal domain; Region: RuvA_N; pfam01330 596154001562 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 596154001563 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 596154001564 DNA-K related protein; Region: DUF3731; pfam12531 596154001565 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 596154001566 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 596154001567 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 596154001568 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 596154001569 Walker A motif; other site 596154001570 ATP binding site [chemical binding]; other site 596154001571 Walker B motif; other site 596154001572 arginine finger; other site 596154001573 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 596154001574 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 596154001575 MgtC family; Region: MgtC; pfam02308 596154001576 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 596154001577 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 596154001578 dimer interface [polypeptide binding]; other site 596154001579 active site 596154001580 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 596154001581 substrate binding site [chemical binding]; other site 596154001582 catalytic residue [active] 596154001583 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 596154001584 catalytic core [active] 596154001585 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 596154001586 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 596154001587 Ligand Binding Site [chemical binding]; other site 596154001588 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 596154001589 active site 596154001590 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 596154001591 active site 596154001592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154001593 pteridine reductase; Provisional; Region: PRK09135 596154001594 NAD(P) binding site [chemical binding]; other site 596154001595 active site 596154001596 Uncharacterized conserved protein [Function unknown]; Region: COG1565 596154001597 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 596154001598 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 596154001599 dimer interface [polypeptide binding]; other site 596154001600 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154001601 metal binding site [ion binding]; metal-binding site 596154001602 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 596154001603 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 596154001604 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 596154001605 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 596154001606 active site 596154001607 homotetramer interface [polypeptide binding]; other site 596154001608 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 596154001609 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 596154001610 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 596154001611 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 596154001612 active site 596154001613 motif I; other site 596154001614 motif II; other site 596154001615 thioredoxin 2; Provisional; Region: PRK10996 596154001616 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 596154001617 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 596154001618 catalytic residues [active] 596154001619 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 596154001620 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 596154001621 active site 596154001622 NTP binding site [chemical binding]; other site 596154001623 metal binding triad [ion binding]; metal-binding site 596154001624 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 596154001625 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 596154001626 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 596154001627 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 596154001628 Walker A motif; other site 596154001629 ATP binding site [chemical binding]; other site 596154001630 Walker B motif; other site 596154001631 arginine finger; other site 596154001632 Helix-turn-helix domains; Region: HTH; cl00088 596154001633 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 596154001634 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 596154001635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154001636 NMT1-like family; Region: NMT1_2; cl15260 596154001637 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 596154001638 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 596154001639 putative active site [active] 596154001640 putative metal binding site [ion binding]; other site 596154001641 glutathione S-transferase; Provisional; Region: PRK15113 596154001642 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 596154001643 putative C-terminal domain interface [polypeptide binding]; other site 596154001644 putative GSH binding site (G-site) [chemical binding]; other site 596154001645 putative dimer interface [polypeptide binding]; other site 596154001646 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 596154001647 putative N-terminal domain interface [polypeptide binding]; other site 596154001648 putative dimer interface [polypeptide binding]; other site 596154001649 putative substrate binding pocket (H-site) [chemical binding]; other site 596154001650 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 596154001651 lytic murein transglycosylase; Provisional; Region: PRK11619 596154001652 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 596154001653 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154001654 catalytic residue [active] 596154001655 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 596154001656 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 596154001657 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 596154001658 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 596154001659 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 596154001660 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 596154001661 active site 596154001662 substrate binding site [chemical binding]; other site 596154001663 FMN binding site [chemical binding]; other site 596154001664 putative catalytic residues [active] 596154001665 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 596154001666 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 596154001667 N-terminal plug; other site 596154001668 ligand-binding site [chemical binding]; other site 596154001669 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154001670 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 596154001671 AMP-binding enzyme; Region: AMP-binding; cl15778 596154001672 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154001673 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 596154001674 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 596154001675 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 596154001676 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 596154001677 dimer interface [polypeptide binding]; other site 596154001678 active site 596154001679 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 596154001680 dimer interface [polypeptide binding]; other site 596154001681 active site 1 [active] 596154001682 active site 2 [active] 596154001683 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 596154001684 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 596154001685 putative active site [active] 596154001686 catalytic triad [active] 596154001687 putative dimer interface [polypeptide binding]; other site 596154001688 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 596154001689 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 596154001690 Transporter associated domain; Region: CorC_HlyC; cl08393 596154001691 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 596154001692 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154001693 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154001694 Helix-turn-helix domains; Region: HTH; cl00088 596154001695 Helix-turn-helix domains; Region: HTH; cl00088 596154001696 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 596154001697 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 596154001698 dimer interface [polypeptide binding]; other site 596154001699 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 596154001700 active site 596154001701 Fe binding site [ion binding]; other site 596154001702 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 596154001703 cofactor binding site; other site 596154001704 metal binding site [ion binding]; metal-binding site 596154001705 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 596154001706 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 596154001707 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 596154001708 tetramer interface [polypeptide binding]; other site 596154001709 TPP-binding site [chemical binding]; other site 596154001710 heterodimer interface [polypeptide binding]; other site 596154001711 phosphorylation loop region [posttranslational modification] 596154001712 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 596154001713 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 596154001714 alpha subunit interface [polypeptide binding]; other site 596154001715 TPP binding site [chemical binding]; other site 596154001716 heterodimer interface [polypeptide binding]; other site 596154001717 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 596154001718 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 596154001719 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 596154001720 E3 interaction surface; other site 596154001721 lipoyl attachment site [posttranslational modification]; other site 596154001722 e3 binding domain; Region: E3_binding; pfam02817 596154001723 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 596154001724 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 596154001725 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154001726 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 596154001727 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 596154001728 dimer interface [polypeptide binding]; other site 596154001729 motif 1; other site 596154001730 active site 596154001731 motif 2; other site 596154001732 motif 3; other site 596154001733 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 596154001734 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 596154001735 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 596154001736 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 596154001737 active site 596154001738 motif I; other site 596154001739 motif II; other site 596154001740 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 596154001741 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 596154001742 putative acyl-acceptor binding pocket; other site 596154001743 Protein of unknown function DUF45; Region: DUF45; cl00636 596154001744 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 596154001745 active site residue [active] 596154001746 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 596154001747 BON domain; Region: BON; cl02771 596154001748 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 596154001749 putative peptidoglycan binding site; other site 596154001750 Type III pantothenate kinase; Region: Pan_kinase; cl09130 596154001751 Helix-turn-helix domains; Region: HTH; cl00088 596154001752 Bacterial transcriptional repressor; Region: TetR; pfam13972 596154001753 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 596154001754 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 596154001755 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 596154001756 NAD binding site [chemical binding]; other site 596154001757 substrate binding site [chemical binding]; other site 596154001758 homodimer interface [polypeptide binding]; other site 596154001759 active site 596154001760 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 596154001761 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 596154001762 NADP binding site [chemical binding]; other site 596154001763 active site 596154001764 putative substrate binding site [chemical binding]; other site 596154001765 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 596154001766 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 596154001767 substrate binding site; other site 596154001768 tetramer interface; other site 596154001769 Cupin domain; Region: Cupin_2; cl09118 596154001770 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_6; cd04955 596154001771 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 596154001772 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 596154001773 Ligand binding site; other site 596154001774 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 596154001775 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 596154001776 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 596154001777 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 596154001778 Walker A motif; other site 596154001779 ATP binding site [chemical binding]; other site 596154001780 Walker B motif; other site 596154001781 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 596154001782 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 596154001783 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 596154001784 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 596154001785 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 596154001786 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 596154001787 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 596154001788 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 596154001789 Helix-turn-helix domains; Region: HTH; cl00088 596154001790 Winged helix-turn helix; Region: HTH_29; pfam13551 596154001791 Integrase core domain; Region: rve; cl01316 596154001792 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 596154001793 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 596154001794 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154001795 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 596154001796 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 596154001797 Walker A/P-loop; other site 596154001798 ATP binding site [chemical binding]; other site 596154001799 Q-loop/lid; other site 596154001800 ABC transporter signature motif; other site 596154001801 Walker B; other site 596154001802 D-loop; other site 596154001803 H-loop/switch region; other site 596154001804 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 596154001805 putative carbohydrate binding site [chemical binding]; other site 596154001806 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154001807 putative acyl-acceptor binding pocket; other site 596154001808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154001809 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 596154001810 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154001811 catalytic residue [active] 596154001812 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 596154001813 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 596154001814 Mg++ binding site [ion binding]; other site 596154001815 putative catalytic motif [active] 596154001816 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 596154001817 feedback inhibition sensing region; other site 596154001818 homohexameric interface [polypeptide binding]; other site 596154001819 nucleotide binding site [chemical binding]; other site 596154001820 N-acetyl-L-glutamate binding site [chemical binding]; other site 596154001821 division inhibitor protein; Provisional; Region: slmA; PRK09480 596154001822 Helix-turn-helix domains; Region: HTH; cl00088 596154001823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154001824 Helix-turn-helix domains; Region: HTH; cl00088 596154001825 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 596154001826 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 596154001827 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154001828 active site 596154001829 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 596154001830 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 596154001831 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 596154001832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154001833 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154001834 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 596154001835 substrate binding site [chemical binding]; other site 596154001836 oxyanion hole (OAH) forming residues; other site 596154001837 trimer interface [polypeptide binding]; other site 596154001838 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 596154001839 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 596154001840 dimer interface [polypeptide binding]; other site 596154001841 active site 596154001842 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 596154001843 enoyl-CoA hydratase; Provisional; Region: PRK06688 596154001844 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 596154001845 substrate binding site [chemical binding]; other site 596154001846 oxyanion hole (OAH) forming residues; other site 596154001847 trimer interface [polypeptide binding]; other site 596154001848 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 596154001849 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 596154001850 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 596154001851 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 596154001852 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 596154001853 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 596154001854 Walker A/P-loop; other site 596154001855 ATP binding site [chemical binding]; other site 596154001856 Q-loop/lid; other site 596154001857 ABC transporter signature motif; other site 596154001858 Walker B; other site 596154001859 D-loop; other site 596154001860 H-loop/switch region; other site 596154001861 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 596154001862 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 596154001863 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 596154001864 DctM-like transporters; Region: DctM; pfam06808 596154001865 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 596154001866 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 596154001867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154001868 Helix-turn-helix domains; Region: HTH; cl00088 596154001869 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 596154001870 dimerization interface [polypeptide binding]; other site 596154001871 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 596154001872 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 596154001873 substrate binding pocket [chemical binding]; other site 596154001874 membrane-bound complex binding site; other site 596154001875 hinge residues; other site 596154001876 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 596154001877 dimer interface [polypeptide binding]; other site 596154001878 conserved gate region; other site 596154001879 putative PBP binding loops; other site 596154001880 ABC-ATPase subunit interface; other site 596154001881 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 596154001882 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 596154001883 dimer interface [polypeptide binding]; other site 596154001884 conserved gate region; other site 596154001885 putative PBP binding loops; other site 596154001886 ABC-ATPase subunit interface; other site 596154001887 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 596154001888 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 596154001889 Walker A/P-loop; other site 596154001890 ATP binding site [chemical binding]; other site 596154001891 Q-loop/lid; other site 596154001892 ABC transporter signature motif; other site 596154001893 Walker B; other site 596154001894 D-loop; other site 596154001895 H-loop/switch region; other site 596154001896 ornithine cyclodeaminase; Validated; Region: PRK07589 596154001897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154001898 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 596154001899 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 596154001900 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 596154001901 G1 box; other site 596154001902 putative GEF interaction site [polypeptide binding]; other site 596154001903 GTP/Mg2+ binding site [chemical binding]; other site 596154001904 Switch I region; other site 596154001905 G2 box; other site 596154001906 G3 box; other site 596154001907 Switch II region; other site 596154001908 G4 box; other site 596154001909 G5 box; other site 596154001910 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 596154001911 classical (c) SDRs; Region: SDR_c; cd05233 596154001912 short chain dehydrogenase; Provisional; Region: PRK05650 596154001913 NAD(P) binding site [chemical binding]; other site 596154001914 active site 596154001915 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 596154001916 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 596154001917 oligomerization interface [polypeptide binding]; other site 596154001918 active site 596154001919 NAD+ binding site [chemical binding]; other site 596154001920 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 596154001921 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 596154001922 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 596154001923 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 596154001924 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 596154001925 FAD binding site [chemical binding]; other site 596154001926 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 596154001927 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 596154001928 Protein kinase domain; Region: Pkinase; pfam00069 596154001929 Catalytic domain of Protein Kinases; Region: PKc; cd00180 596154001930 active site 596154001931 ATP binding site [chemical binding]; other site 596154001932 substrate binding site [chemical binding]; other site 596154001933 activation loop (A-loop); other site 596154001934 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 596154001935 23S rRNA interface [nucleotide binding]; other site 596154001936 L3 interface [polypeptide binding]; other site 596154001937 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 596154001938 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 596154001939 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 596154001940 Peptidase family M23; Region: Peptidase_M23; pfam01551 596154001941 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 596154001942 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 596154001943 active site 596154001944 HIGH motif; other site 596154001945 dimer interface [polypeptide binding]; other site 596154001946 KMSKS motif; other site 596154001947 Helix-turn-helix domains; Region: HTH; cl00088 596154001948 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 596154001949 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 596154001950 dimerization interface [polypeptide binding]; other site 596154001951 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 596154001952 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 596154001953 Substrate binding site; other site 596154001954 Mg++ binding site; other site 596154001955 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 596154001956 active site 596154001957 substrate binding site [chemical binding]; other site 596154001958 CoA binding site [chemical binding]; other site 596154001959 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 596154001960 dimer interface [polypeptide binding]; other site 596154001961 phosphorylation site [posttranslational modification] 596154001962 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 596154001963 ATP binding site [chemical binding]; other site 596154001964 G-X-G motif; other site 596154001965 chaperone protein DnaJ; Provisional; Region: PRK14299 596154001966 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 596154001967 HSP70 interaction site [polypeptide binding]; other site 596154001968 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 596154001969 substrate binding site [polypeptide binding]; other site 596154001970 dimer interface [polypeptide binding]; other site 596154001971 Helix-turn-helix domains; Region: HTH; cl00088 596154001972 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 596154001973 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 596154001974 glutaminase active site [active] 596154001975 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 596154001976 dimer interface [polypeptide binding]; other site 596154001977 active site 596154001978 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 596154001979 dimer interface [polypeptide binding]; other site 596154001980 active site 596154001981 transposase/IS protein; Provisional; Region: PRK09183 596154001982 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 596154001983 Walker A motif; other site 596154001984 ATP binding site [chemical binding]; other site 596154001985 Walker B motif; other site 596154001986 arginine finger; other site 596154001987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154001988 Helix-turn-helix domains; Region: HTH; cl00088 596154001989 Integrase core domain; Region: rve; cl01316 596154001990 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154001991 Helix-turn-helix domains; Region: HTH; cl00088 596154001992 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 596154001993 Moco binding site; other site 596154001994 metal coordination site [ion binding]; other site 596154001995 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 596154001996 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 596154001997 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 596154001998 active site 596154001999 phosphorylation site [posttranslational modification] 596154002000 intermolecular recognition site; other site 596154002001 dimerization interface [polypeptide binding]; other site 596154002002 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 596154002003 DNA binding site [nucleotide binding] 596154002004 sensory histidine kinase CreC; Provisional; Region: PRK11100 596154002005 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 596154002006 dimer interface [polypeptide binding]; other site 596154002007 phosphorylation site [posttranslational modification] 596154002008 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 596154002009 ATP binding site [chemical binding]; other site 596154002010 Mg2+ binding site [ion binding]; other site 596154002011 G-X-G motif; other site 596154002012 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 596154002013 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 596154002014 Substrate binding site; other site 596154002015 Cupin domain; Region: Cupin_2; cl09118 596154002016 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 596154002017 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 596154002018 SLBB domain; Region: SLBB; pfam10531 596154002019 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 596154002020 Chain length determinant protein; Region: Wzz; cl15801 596154002021 Chain length determinant protein; Region: Wzz; cl15801 596154002022 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 596154002023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154002024 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 596154002025 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 596154002026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154002027 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 596154002028 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 596154002029 putative active site [active] 596154002030 putative catalytic site [active] 596154002031 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154002032 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 596154002033 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 596154002034 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 596154002035 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 596154002036 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 596154002037 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 596154002038 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 596154002039 active site 596154002040 dimer interface [polypeptide binding]; other site 596154002041 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 596154002042 Ligand Binding Site [chemical binding]; other site 596154002043 Molecular Tunnel; other site 596154002044 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 596154002045 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 596154002046 putative ADP-binding pocket [chemical binding]; other site 596154002047 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 596154002048 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 596154002049 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 596154002050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 596154002051 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 596154002052 O-Antigen ligase; Region: Wzy_C; cl04850 596154002053 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 596154002054 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 596154002055 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 596154002056 putative active site [active] 596154002057 putative metal binding site [ion binding]; other site 596154002058 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 596154002059 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 596154002060 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 596154002061 putative active site [active] 596154002062 putative metal binding site [ion binding]; other site 596154002063 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 596154002064 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154002065 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 596154002066 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 596154002067 active site 596154002068 colanic acid exporter; Provisional; Region: PRK10459 596154002069 MatE; Region: MatE; cl10513 596154002070 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 596154002071 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 596154002072 NAD binding site [chemical binding]; other site 596154002073 substrate binding site [chemical binding]; other site 596154002074 homodimer interface [polypeptide binding]; other site 596154002075 active site 596154002076 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 596154002077 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 596154002078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154002079 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154002080 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 596154002081 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 596154002082 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 596154002083 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 596154002084 Phosphopantetheine attachment site; Region: PP-binding; cl09936 596154002085 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 596154002086 AMP-binding enzyme; Region: AMP-binding; cl15778 596154002087 AMP-binding enzyme; Region: AMP-binding; cl15778 596154002088 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 596154002089 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 596154002090 dimer interface [polypeptide binding]; other site 596154002091 active site 596154002092 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 596154002093 catalytic residues [active] 596154002094 substrate binding site [chemical binding]; other site 596154002095 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 596154002096 GAF domain; Region: GAF; cl15785 596154002097 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 596154002098 ATP binding site [chemical binding]; other site 596154002099 Mg2+ binding site [ion binding]; other site 596154002100 G-X-G motif; other site 596154002101 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 596154002102 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 596154002103 active site 596154002104 phosphorylation site [posttranslational modification] 596154002105 intermolecular recognition site; other site 596154002106 dimerization interface [polypeptide binding]; other site 596154002107 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 596154002108 Walker A motif; other site 596154002109 ATP binding site [chemical binding]; other site 596154002110 Walker B motif; other site 596154002111 arginine finger; other site 596154002112 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 596154002113 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 596154002114 binding surface 596154002115 TPR motif; other site 596154002116 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 596154002117 binding surface 596154002118 TPR motif; other site 596154002119 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 596154002120 TPR motif; other site 596154002121 binding surface 596154002122 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 596154002123 TPR motif; other site 596154002124 binding surface 596154002125 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 596154002126 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 596154002127 hypothetical protein; Validated; Region: PRK08238 596154002128 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154002129 UbiA prenyltransferase family; Region: UbiA; cl00337 596154002130 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 596154002131 Helix-turn-helix domains; Region: HTH; cl00088 596154002132 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 596154002133 putative dimerization interface [polypeptide binding]; other site 596154002134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154002135 NMT1-like family; Region: NMT1_2; cl15260 596154002136 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 596154002137 rRNA binding site [nucleotide binding]; other site 596154002138 predicted 30S ribosome binding site; other site 596154002139 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 596154002140 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 596154002141 AMP-binding enzyme; Region: AMP-binding; cl15778 596154002142 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 596154002143 FAD binding pocket [chemical binding]; other site 596154002144 conserved FAD binding motif [chemical binding]; other site 596154002145 phosphate binding motif [ion binding]; other site 596154002146 beta-alpha-beta structure motif; other site 596154002147 NAD binding pocket [chemical binding]; other site 596154002148 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 596154002149 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 596154002150 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 596154002151 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 596154002152 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 596154002153 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 596154002154 catalytic residues [active] 596154002155 CreA protein; Region: CreA; pfam05981 596154002156 cyanophycin synthetase; Provisional; Region: PRK14016 596154002157 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154002158 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154002159 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 596154002160 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 596154002161 cyanophycin synthetase; Provisional; Region: PRK14016 596154002162 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154002163 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 596154002164 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 596154002165 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 596154002166 Walker A/P-loop; other site 596154002167 ATP binding site [chemical binding]; other site 596154002168 Q-loop/lid; other site 596154002169 ABC transporter signature motif; other site 596154002170 Walker B; other site 596154002171 D-loop; other site 596154002172 H-loop/switch region; other site 596154002173 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 596154002174 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 596154002175 elongation factor G; Reviewed; Region: PRK12740 596154002176 G1 box; other site 596154002177 putative GEF interaction site [polypeptide binding]; other site 596154002178 GTP/Mg2+ binding site [chemical binding]; other site 596154002179 Switch I region; other site 596154002180 G2 box; other site 596154002181 G3 box; other site 596154002182 Switch II region; other site 596154002183 G4 box; other site 596154002184 G5 box; other site 596154002185 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 596154002186 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 596154002187 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 596154002188 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 596154002189 general secretion pathway protein F; Region: GspF; TIGR02120 596154002190 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 596154002191 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 596154002192 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 596154002193 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 596154002194 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 596154002195 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 596154002196 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 596154002197 Walker A motif; other site 596154002198 ATP binding site [chemical binding]; other site 596154002199 Walker B motif; other site 596154002200 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 596154002201 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 596154002202 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 596154002203 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 596154002204 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 596154002205 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 596154002206 GspL periplasmic domain; Region: GspL_C; cl14909 596154002207 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 596154002208 general secretion pathway protein I; Region: gspI; TIGR01707 596154002209 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 596154002210 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 596154002211 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 596154002212 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 596154002213 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 596154002214 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 596154002215 threonine dehydratase; Reviewed; Region: PRK09224 596154002216 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 596154002217 tetramer interface [polypeptide binding]; other site 596154002218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154002219 catalytic residue [active] 596154002220 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 596154002221 putative Ile/Val binding site [chemical binding]; other site 596154002222 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 596154002223 putative Ile/Val binding site [chemical binding]; other site 596154002224 OsmC-like protein; Region: OsmC; cl00767 596154002225 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 596154002226 dinuclear metal binding motif [ion binding]; other site 596154002227 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 596154002228 trimer interface [polypeptide binding]; other site 596154002229 eyelet of channel; other site 596154002230 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 596154002231 trimer interface [polypeptide binding]; other site 596154002232 eyelet of channel; other site 596154002233 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 596154002234 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 596154002235 dimer interface [polypeptide binding]; other site 596154002236 conserved gate region; other site 596154002237 putative PBP binding loops; other site 596154002238 ABC-ATPase subunit interface; other site 596154002239 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 596154002240 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 596154002241 metal binding site [ion binding]; metal-binding site 596154002242 putative dimer interface [polypeptide binding]; other site 596154002243 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 596154002244 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 596154002245 dimer interface [polypeptide binding]; other site 596154002246 conserved gate region; other site 596154002247 putative PBP binding loops; other site 596154002248 ABC-ATPase subunit interface; other site 596154002249 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 596154002250 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 596154002251 Walker A/P-loop; other site 596154002252 ATP binding site [chemical binding]; other site 596154002253 Q-loop/lid; other site 596154002254 ABC transporter signature motif; other site 596154002255 Walker B; other site 596154002256 D-loop; other site 596154002257 H-loop/switch region; other site 596154002258 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154002259 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 596154002260 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 596154002261 Walker A/P-loop; other site 596154002262 ATP binding site [chemical binding]; other site 596154002263 Q-loop/lid; other site 596154002264 ABC transporter signature motif; other site 596154002265 Walker B; other site 596154002266 D-loop; other site 596154002267 H-loop/switch region; other site 596154002268 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154002269 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 596154002270 substrate binding site [chemical binding]; other site 596154002271 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 596154002272 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 596154002273 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 596154002274 putative active site [active] 596154002275 transaldolase-like protein; Provisional; Region: PTZ00411 596154002276 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 596154002277 active site 596154002278 dimer interface [polypeptide binding]; other site 596154002279 catalytic residue [active] 596154002280 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 596154002281 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 596154002282 active site 596154002283 dimer interface [polypeptide binding]; other site 596154002284 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 596154002285 dimer interface [polypeptide binding]; other site 596154002286 active site 596154002287 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 596154002288 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 596154002289 ring oligomerisation interface [polypeptide binding]; other site 596154002290 ATP/Mg binding site [chemical binding]; other site 596154002291 stacking interactions; other site 596154002292 hinge regions; other site 596154002293 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 596154002294 oligomerisation interface [polypeptide binding]; other site 596154002295 mobile loop; other site 596154002296 roof hairpin; other site 596154002297 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 596154002298 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154002299 active site 596154002300 nucleotide binding site [chemical binding]; other site 596154002301 HIGH motif; other site 596154002302 KMSKS motif; other site 596154002303 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 596154002304 nudix motif; other site 596154002305 S-adenosylmethionine synthetase; Validated; Region: PRK05250 596154002306 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 596154002307 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 596154002308 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 596154002309 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 596154002310 putative acyl-acceptor binding pocket; other site 596154002311 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 596154002312 putative acyl-acceptor binding pocket; other site 596154002313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154002314 Helix-turn-helix domains; Region: HTH; cl00088 596154002315 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 596154002316 putative dimerization interface [polypeptide binding]; other site 596154002317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154002318 NMT1-like family; Region: NMT1_2; cl15260 596154002319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154002320 NMT1-like family; Region: NMT1_2; cl15260 596154002321 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 596154002322 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154002323 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 596154002324 active site 596154002325 Predicted GTPase [General function prediction only]; Region: COG0218 596154002326 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 596154002327 G1 box; other site 596154002328 GTP/Mg2+ binding site [chemical binding]; other site 596154002329 Switch I region; other site 596154002330 G2 box; other site 596154002331 G3 box; other site 596154002332 Switch II region; other site 596154002333 G4 box; other site 596154002334 G5 box; other site 596154002335 Cytochrome c; Region: Cytochrom_C; cl11414 596154002336 Cytochrome c; Region: Cytochrom_C; cl11414 596154002337 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 596154002338 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 596154002339 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 596154002340 TMAO/DMSO reductase; Reviewed; Region: PRK05363 596154002341 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 596154002342 Moco binding site; other site 596154002343 metal coordination site [ion binding]; other site 596154002344 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 596154002345 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154002346 diaminopimelate decarboxylase; Region: lysA; TIGR01048 596154002347 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 596154002348 active site 596154002349 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 596154002350 substrate binding site [chemical binding]; other site 596154002351 catalytic residues [active] 596154002352 dimer interface [polypeptide binding]; other site 596154002353 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; cl00238 596154002354 putative iron binding site [ion binding]; other site 596154002355 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 596154002356 Transglycosylase; Region: Transgly; cl07896 596154002357 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154002358 Competence protein A; Region: Competence_A; pfam11104 596154002359 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 596154002360 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 596154002361 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 596154002362 Pilus assembly protein, PilO; Region: PilO; cl01234 596154002363 Pilus assembly protein, PilP; Region: PilP; cl01235 596154002364 AMIN domain; Region: AMIN; pfam11741 596154002365 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 596154002366 Secretin and TonB N terminus short domain; Region: STN; cl06624 596154002367 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 596154002368 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 596154002369 Cadherin repeat-like domain; Region: CA_like; cl15786 596154002370 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 596154002371 active site 596154002372 dimer interface [polypeptide binding]; other site 596154002373 metal binding site [ion binding]; metal-binding site 596154002374 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 596154002375 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 596154002376 Zn2+ binding site [ion binding]; other site 596154002377 Mg2+ binding site [ion binding]; other site 596154002378 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 596154002379 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 596154002380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154002381 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 596154002382 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154002383 tetrameric interface [polypeptide binding]; other site 596154002384 NAD binding site [chemical binding]; other site 596154002385 catalytic residues [active] 596154002386 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154002387 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 596154002388 putative ligand binding site [chemical binding]; other site 596154002389 Transposase IS200 like; Region: Y1_Tnp; cl00848 596154002390 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 596154002391 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 596154002392 active site 596154002393 dimer interface [polypeptide binding]; other site 596154002394 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 596154002395 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 596154002396 active site 596154002397 FMN binding site [chemical binding]; other site 596154002398 substrate binding site [chemical binding]; other site 596154002399 3Fe-4S cluster binding site [ion binding]; other site 596154002400 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 596154002401 domain interface; other site 596154002402 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 596154002403 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 596154002404 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 596154002405 substrate binding pocket [chemical binding]; other site 596154002406 membrane-bound complex binding site; other site 596154002407 hinge residues; other site 596154002408 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 596154002409 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 596154002410 dimer interface [polypeptide binding]; other site 596154002411 conserved gate region; other site 596154002412 putative PBP binding loops; other site 596154002413 ABC-ATPase subunit interface; other site 596154002414 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 596154002415 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 596154002416 Walker A/P-loop; other site 596154002417 ATP binding site [chemical binding]; other site 596154002418 Q-loop/lid; other site 596154002419 ABC transporter signature motif; other site 596154002420 Walker B; other site 596154002421 D-loop; other site 596154002422 H-loop/switch region; other site 596154002423 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 596154002424 spermidine synthase; Provisional; Region: PRK00811 596154002425 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 596154002426 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 596154002427 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 596154002428 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 596154002429 Walker A/P-loop; other site 596154002430 ATP binding site [chemical binding]; other site 596154002431 Q-loop/lid; other site 596154002432 ABC transporter signature motif; other site 596154002433 Walker B; other site 596154002434 D-loop; other site 596154002435 H-loop/switch region; other site 596154002436 Permease; Region: Permease; cl00510 596154002437 mce related protein; Region: MCE; pfam02470 596154002438 VacJ like lipoprotein; Region: VacJ; cl01073 596154002439 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 596154002440 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 596154002441 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 596154002442 PAS domain; Region: PAS_9; pfam13426 596154002443 putative active site [active] 596154002444 heme pocket [chemical binding]; other site 596154002445 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 596154002446 PAS fold; Region: PAS_4; pfam08448 596154002447 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154002448 metal binding site [ion binding]; metal-binding site 596154002449 active site 596154002450 I-site; other site 596154002451 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 596154002452 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 596154002453 Walker A/P-loop; other site 596154002454 ATP binding site [chemical binding]; other site 596154002455 Q-loop/lid; other site 596154002456 ABC transporter signature motif; other site 596154002457 Walker B; other site 596154002458 D-loop; other site 596154002459 H-loop/switch region; other site 596154002460 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154002461 BolA-like protein; Region: BolA; cl00386 596154002462 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 596154002463 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 596154002464 hinge; other site 596154002465 active site 596154002466 ATP phosphoribosyltransferase; Region: HisG; cl15266 596154002467 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 596154002468 histidinol dehydrogenase; Region: hisD; TIGR00069 596154002469 NAD binding site [chemical binding]; other site 596154002470 dimerization interface [polypeptide binding]; other site 596154002471 product binding site; other site 596154002472 substrate binding site [chemical binding]; other site 596154002473 zinc binding site [ion binding]; other site 596154002474 catalytic residues [active] 596154002475 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 596154002476 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 596154002477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154002478 homodimer interface [polypeptide binding]; other site 596154002479 catalytic residue [active] 596154002480 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 596154002481 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 596154002482 putative active site pocket [active] 596154002483 4-fold oligomerization interface [polypeptide binding]; other site 596154002484 metal binding residues [ion binding]; metal-binding site 596154002485 3-fold/trimer interface [polypeptide binding]; other site 596154002486 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 596154002487 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 596154002488 putative active site [active] 596154002489 oxyanion strand; other site 596154002490 catalytic triad [active] 596154002491 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 596154002492 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 596154002493 catalytic residues [active] 596154002494 Spherulation-specific family 4; Region: Spherulin4; pfam12138 596154002495 Predicted membrane protein [Function unknown]; Region: COG4267 596154002496 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 596154002497 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 596154002498 GAF domain; Region: GAF; cl15785 596154002499 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 596154002500 Tetratricopeptide repeat; Region: TPR_15; pfam13429 596154002501 TM1410 hypothetical-related protein; Region: DUF297; cl00997 596154002502 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 596154002503 putative active site [active] 596154002504 UDP-glucose 4-epimerase; Region: PLN02240 596154002505 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 596154002506 NAD binding site [chemical binding]; other site 596154002507 homodimer interface [polypeptide binding]; other site 596154002508 active site 596154002509 substrate binding site [chemical binding]; other site 596154002510 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 596154002511 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 596154002512 substrate binding site [chemical binding]; other site 596154002513 glutamase interaction surface [polypeptide binding]; other site 596154002514 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 596154002515 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 596154002516 Predicted membrane protein [Function unknown]; Region: COG3671 596154002517 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 596154002518 active site 596154002519 nucleophile elbow; other site 596154002520 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 596154002521 nucleotide binding site/active site [active] 596154002522 HIT family signature motif; other site 596154002523 catalytic residue [active] 596154002524 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 596154002525 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 596154002526 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 596154002527 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 596154002528 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 596154002529 protein binding site [polypeptide binding]; other site 596154002530 Uncharacterized conserved protein [Function unknown]; Region: COG0327 596154002531 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 596154002532 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 596154002533 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 596154002534 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 596154002535 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 596154002536 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 596154002537 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 596154002538 [2Fe-2S] cluster binding site [ion binding]; other site 596154002539 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 596154002540 Qi binding site; other site 596154002541 intrachain domain interface; other site 596154002542 interchain domain interface [polypeptide binding]; other site 596154002543 cytochrome b; Provisional; Region: CYTB; MTH00145 596154002544 heme bH binding site [chemical binding]; other site 596154002545 heme bL binding site [chemical binding]; other site 596154002546 Qo binding site; other site 596154002547 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 596154002548 interchain domain interface [polypeptide binding]; other site 596154002549 intrachain domain interface; other site 596154002550 Qi binding site; other site 596154002551 Qo binding site; other site 596154002552 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 596154002553 stringent starvation protein A; Provisional; Region: sspA; PRK09481 596154002554 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 596154002555 C-terminal domain interface [polypeptide binding]; other site 596154002556 putative GSH binding site (G-site) [chemical binding]; other site 596154002557 dimer interface [polypeptide binding]; other site 596154002558 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 596154002559 dimer interface [polypeptide binding]; other site 596154002560 N-terminal domain interface [polypeptide binding]; other site 596154002561 Stringent starvation protein B; Region: SspB; cl01120 596154002562 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 596154002563 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 596154002564 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 596154002565 nucleotide binding region [chemical binding]; other site 596154002566 hypothetical protein; Provisional; Region: PRK10396 596154002567 SEC-C motif; Region: SEC-C; pfam02810 596154002568 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 596154002569 heterotetramer interface [polypeptide binding]; other site 596154002570 active site pocket [active] 596154002571 cleavage site 596154002572 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 596154002573 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 596154002574 Walker A motif; other site 596154002575 ATP binding site [chemical binding]; other site 596154002576 Walker B motif; other site 596154002577 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 596154002578 active site 596154002579 8-oxo-dGMP binding site [chemical binding]; other site 596154002580 nudix motif; other site 596154002581 metal binding site [ion binding]; metal-binding site 596154002582 Domain of unknown function (DUF329); Region: DUF329; cl01144 596154002583 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 596154002584 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 596154002585 dephospho-CoA kinase; Region: TIGR00152 596154002586 CoA-binding site [chemical binding]; other site 596154002587 ATP-binding [chemical binding]; other site 596154002588 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 596154002589 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 596154002590 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 596154002591 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 596154002592 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 596154002593 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 596154002594 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 596154002595 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 596154002596 Walker A motif; other site 596154002597 ATP binding site [chemical binding]; other site 596154002598 Walker B motif; other site 596154002599 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 596154002600 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 596154002601 DNA binding site [nucleotide binding] 596154002602 Int/Topo IB signature motif; other site 596154002603 active site 596154002604 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 596154002605 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 596154002606 transposase/IS protein; Provisional; Region: PRK09183 596154002607 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 596154002608 Walker A motif; other site 596154002609 ATP binding site [chemical binding]; other site 596154002610 Walker B motif; other site 596154002611 arginine finger; other site 596154002612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154002613 Helix-turn-helix domains; Region: HTH; cl00088 596154002614 Integrase core domain; Region: rve; cl01316 596154002615 WYL domain; Region: WYL; cl14852 596154002616 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 596154002617 DNA binding site [nucleotide binding] 596154002618 Int/Topo IB signature motif; other site 596154002619 active site 596154002620 catalytic residues [active] 596154002621 putative transposase OrfB; Reviewed; Region: PHA02517 596154002622 HTH-like domain; Region: HTH_21; pfam13276 596154002623 Integrase core domain; Region: rve; cl01316 596154002624 Integrase core domain; Region: rve_3; cl15866 596154002625 Helix-turn-helix domains; Region: HTH; cl00088 596154002626 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 596154002627 substrate binding pocket [chemical binding]; other site 596154002628 chain length determination region; other site 596154002629 substrate-Mg2+ binding site; other site 596154002630 catalytic residues [active] 596154002631 aspartate-rich region 1; other site 596154002632 active site lid residues [active] 596154002633 aspartate-rich region 2; other site 596154002634 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 596154002635 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 596154002636 GTPase CgtA; Reviewed; Region: obgE; PRK12299 596154002637 GTP1/OBG; Region: GTP1_OBG; pfam01018 596154002638 Obg GTPase; Region: Obg; cd01898 596154002639 G1 box; other site 596154002640 GTP/Mg2+ binding site [chemical binding]; other site 596154002641 Switch I region; other site 596154002642 G2 box; other site 596154002643 G3 box; other site 596154002644 Switch II region; other site 596154002645 G4 box; other site 596154002646 G5 box; other site 596154002647 gamma-glutamyl kinase; Provisional; Region: PRK05429 596154002648 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 596154002649 nucleotide binding site [chemical binding]; other site 596154002650 homotetrameric interface [polypeptide binding]; other site 596154002651 putative phosphate binding site [ion binding]; other site 596154002652 putative allosteric binding site; other site 596154002653 PUA domain; Region: PUA; cl00607 596154002654 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 596154002655 putative active site [active] 596154002656 Ap4A binding site [chemical binding]; other site 596154002657 nudix motif; other site 596154002658 putative metal binding site [ion binding]; other site 596154002659 prolyl-tRNA synthetase; Provisional; Region: PRK09194 596154002660 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 596154002661 dimer interface [polypeptide binding]; other site 596154002662 motif 1; other site 596154002663 active site 596154002664 motif 2; other site 596154002665 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 596154002666 putative deacylase active site [active] 596154002667 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 596154002668 active site 596154002669 motif 3; other site 596154002670 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 596154002671 anticodon binding site; other site 596154002672 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 596154002673 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154002674 catalytic residue [active] 596154002675 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 596154002676 Domain of unknown function DUF21; Region: DUF21; pfam01595 596154002677 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 596154002678 Transporter associated domain; Region: CorC_HlyC; cl08393 596154002679 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 596154002680 Walker A motif; other site 596154002681 ATP binding site [chemical binding]; other site 596154002682 Walker B motif; other site 596154002683 arginine finger; other site 596154002684 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 596154002685 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 596154002686 putative GSH binding site [chemical binding]; other site 596154002687 catalytic residues [active] 596154002688 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 596154002689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154002690 peptide chain release factor 1; Validated; Region: prfA; PRK00591 596154002691 RF-1 domain; Region: RF-1; cl02875 596154002692 RF-1 domain; Region: RF-1; cl02875 596154002693 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 596154002694 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 596154002695 tRNA; other site 596154002696 putative tRNA binding site [nucleotide binding]; other site 596154002697 putative NADP binding site [chemical binding]; other site 596154002698 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 596154002699 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 596154002700 Helix-turn-helix domains; Region: HTH; cl00088 596154002701 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 596154002702 dimerization interface [polypeptide binding]; other site 596154002703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154002704 NMT1-like family; Region: NMT1_2; cl15260 596154002705 N-formylglutamate amidohydrolase; Region: FGase; cl01522 596154002706 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 596154002707 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 596154002708 Mechanosensitive ion channel; Region: MS_channel; pfam00924 596154002709 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 596154002710 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 596154002711 putative active site [active] 596154002712 catalytic site [active] 596154002713 putative metal binding site [ion binding]; other site 596154002714 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 596154002715 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 596154002716 Walker A/P-loop; other site 596154002717 ATP binding site [chemical binding]; other site 596154002718 Q-loop/lid; other site 596154002719 ABC transporter signature motif; other site 596154002720 Walker B; other site 596154002721 D-loop; other site 596154002722 H-loop/switch region; other site 596154002723 TOBE domain; Region: TOBE_2; cl01440 596154002724 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 596154002725 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 596154002726 dimer interface [polypeptide binding]; other site 596154002727 conserved gate region; other site 596154002728 putative PBP binding loops; other site 596154002729 ABC-ATPase subunit interface; other site 596154002730 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 596154002731 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 596154002732 dimer interface [polypeptide binding]; other site 596154002733 conserved gate region; other site 596154002734 ABC-ATPase subunit interface; other site 596154002735 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 596154002736 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 596154002737 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 596154002738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154002739 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 596154002740 L-serine binding site [chemical binding]; other site 596154002741 ACT domain interface; other site 596154002742 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 596154002743 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 596154002744 FAD binding domain; Region: FAD_binding_4; pfam01565 596154002745 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 596154002746 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 596154002747 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 596154002748 Cysteine-rich domain; Region: CCG; pfam02754 596154002749 Cysteine-rich domain; Region: CCG; pfam02754 596154002750 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 596154002751 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 596154002752 nucleotide binding site/active site [active] 596154002753 HIT family signature motif; other site 596154002754 catalytic residue [active] 596154002755 Protein of unknown function (DUF971); Region: DUF971; cl01414 596154002756 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 596154002757 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 596154002758 S-adenosylmethionine binding site [chemical binding]; other site 596154002759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154002760 Tim44-like domain; Region: Tim44; cl09208 596154002761 SCP-2 sterol transfer family; Region: SCP2; cl01225 596154002762 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154002763 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 596154002764 Sodium:solute symporter family; Region: SSF; cl00456 596154002765 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 596154002766 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 596154002767 Protein of unknown function (DUF502); Region: DUF502; cl01107 596154002768 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 596154002769 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 596154002770 dimer interface [polypeptide binding]; other site 596154002771 anticodon binding site; other site 596154002772 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 596154002773 homodimer interface [polypeptide binding]; other site 596154002774 motif 1; other site 596154002775 active site 596154002776 motif 2; other site 596154002777 GAD domain; Region: GAD; pfam02938 596154002778 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 596154002779 motif 3; other site 596154002780 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 596154002781 nudix motif; other site 596154002782 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 596154002783 putative catalytic site [active] 596154002784 putative metal binding site [ion binding]; other site 596154002785 putative phosphate binding site [ion binding]; other site 596154002786 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 596154002787 putative active site [active] 596154002788 catalytic site [active] 596154002789 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 596154002790 putative active site [active] 596154002791 catalytic site [active] 596154002792 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 596154002793 active site 596154002794 Sensors of blue-light using FAD; Region: BLUF; cl04855 596154002795 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 596154002796 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 596154002797 NMT1-like family; Region: NMT1_2; cl15260 596154002798 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 596154002799 dimer interface [polypeptide binding]; other site 596154002800 phosphorylation site [posttranslational modification] 596154002801 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 596154002802 ATP binding site [chemical binding]; other site 596154002803 G-X-G motif; other site 596154002804 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 596154002805 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 596154002806 active site 596154002807 phosphorylation site [posttranslational modification] 596154002808 intermolecular recognition site; other site 596154002809 dimerization interface [polypeptide binding]; other site 596154002810 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 596154002811 DNA binding residues [nucleotide binding] 596154002812 Cytochrome c [Energy production and conversion]; Region: COG3258 596154002813 Cytochrome c; Region: Cytochrom_C; cl11414 596154002814 LysE type translocator; Region: LysE; cl00565 596154002815 amidase; Provisional; Region: PRK07042 596154002816 Amidase; Region: Amidase; cl11426 596154002817 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 596154002818 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 596154002819 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 596154002820 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 596154002821 Walker A/P-loop; other site 596154002822 ATP binding site [chemical binding]; other site 596154002823 Q-loop/lid; other site 596154002824 ABC transporter signature motif; other site 596154002825 Walker B; other site 596154002826 D-loop; other site 596154002827 H-loop/switch region; other site 596154002828 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154002829 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 596154002830 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 596154002831 Walker A/P-loop; other site 596154002832 ATP binding site [chemical binding]; other site 596154002833 Q-loop/lid; other site 596154002834 ABC transporter signature motif; other site 596154002835 Walker B; other site 596154002836 D-loop; other site 596154002837 H-loop/switch region; other site 596154002838 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154002839 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 596154002840 dimer interface [polypeptide binding]; other site 596154002841 conserved gate region; other site 596154002842 putative PBP binding loops; other site 596154002843 ABC-ATPase subunit interface; other site 596154002844 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 596154002845 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 596154002846 dimer interface [polypeptide binding]; other site 596154002847 conserved gate region; other site 596154002848 putative PBP binding loops; other site 596154002849 ABC-ATPase subunit interface; other site 596154002850 hypothetical protein; Provisional; Region: PRK13795 596154002851 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 596154002852 putative active site [active] 596154002853 catalytic residue [active] 596154002854 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 596154002855 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 596154002856 5S rRNA interface [nucleotide binding]; other site 596154002857 CTC domain interface [polypeptide binding]; other site 596154002858 L16 interface [polypeptide binding]; other site 596154002859 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 596154002860 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 596154002861 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154002862 active site 596154002863 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 596154002864 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 596154002865 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 596154002866 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 596154002867 binding surface 596154002868 TPR motif; other site 596154002869 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 596154002870 binding surface 596154002871 TPR motif; other site 596154002872 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 596154002873 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 596154002874 DNA binding site [nucleotide binding] 596154002875 catalytic residue [active] 596154002876 H2TH interface [polypeptide binding]; other site 596154002877 putative catalytic residues [active] 596154002878 turnover-facilitating residue; other site 596154002879 intercalation triad [nucleotide binding]; other site 596154002880 8OG recognition residue [nucleotide binding]; other site 596154002881 putative reading head residues; other site 596154002882 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 596154002883 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 596154002884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154002885 Dynamin family; Region: Dynamin_N; pfam00350 596154002886 G1 box; other site 596154002887 GTP/Mg2+ binding site [chemical binding]; other site 596154002888 G2 box; other site 596154002889 Switch I region; other site 596154002890 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154002891 G3 box; other site 596154002892 Switch II region; other site 596154002893 GTP/Mg2+ binding site [chemical binding]; other site 596154002894 G4 box; other site 596154002895 G5 box; other site 596154002896 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 596154002897 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 596154002898 minor groove reading motif; other site 596154002899 helix-hairpin-helix signature motif; other site 596154002900 active site 596154002901 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 596154002902 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 596154002903 DNA binding and oxoG recognition site [nucleotide binding] 596154002904 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 596154002905 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 596154002906 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 596154002907 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 596154002908 Walker A/P-loop; other site 596154002909 ATP binding site [chemical binding]; other site 596154002910 Q-loop/lid; other site 596154002911 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 596154002912 ABC transporter signature motif; other site 596154002913 Walker B; other site 596154002914 D-loop; other site 596154002915 H-loop/switch region; other site 596154002916 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 596154002917 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 596154002918 Helix-turn-helix domains; Region: HTH; cl00088 596154002919 HrcA protein C terminal domain; Region: HrcA; pfam01628 596154002920 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 596154002921 putative transposase OrfB; Reviewed; Region: PHA02517 596154002922 HTH-like domain; Region: HTH_21; pfam13276 596154002923 Integrase core domain; Region: rve; cl01316 596154002924 Integrase core domain; Region: rve_3; cl15866 596154002925 Helix-turn-helix domains; Region: HTH; cl00088 596154002926 Nitrogen regulatory protein P-II; Region: P-II; cl00412 596154002927 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 596154002928 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 596154002929 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154002930 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 596154002931 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 596154002932 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 596154002933 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 596154002934 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 596154002935 dimer interface [polypeptide binding]; other site 596154002936 phosphorylation site [posttranslational modification] 596154002937 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 596154002938 Mg2+ binding site [ion binding]; other site 596154002939 G-X-G motif; other site 596154002940 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 596154002941 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 596154002942 active site 596154002943 phosphorylation site [posttranslational modification] 596154002944 intermolecular recognition site; other site 596154002945 dimerization interface [polypeptide binding]; other site 596154002946 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 596154002947 DNA binding site [nucleotide binding] 596154002948 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 596154002949 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 596154002950 putative NAD(P) binding site [chemical binding]; other site 596154002951 catalytic Zn binding site [ion binding]; other site 596154002952 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 596154002953 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 596154002954 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 596154002955 substrate binding pocket [chemical binding]; other site 596154002956 membrane-bound complex binding site; other site 596154002957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154002958 DNA-binding site [nucleotide binding]; DNA binding site 596154002959 Transcriptional regulators [Transcription]; Region: GntR; COG1802 596154002960 FCD domain; Region: FCD; cl11656 596154002961 aconitate hydratase; Provisional; Region: acnA; PRK12881 596154002962 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 596154002963 substrate binding site [chemical binding]; other site 596154002964 ligand binding site [chemical binding]; other site 596154002965 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 596154002966 substrate binding site [chemical binding]; other site 596154002967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154002968 NMT1-like family; Region: NMT1_2; cl15260 596154002969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154002970 NMT1-like family; Region: NMT1_2; cl15260 596154002971 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 596154002972 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 596154002973 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 596154002974 putative active site pocket [active] 596154002975 metal binding site [ion binding]; metal-binding site 596154002976 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154002977 classical (c) SDRs; Region: SDR_c; cd05233 596154002978 NAD(P) binding site [chemical binding]; other site 596154002979 active site 596154002980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154002981 NMT1-like family; Region: NMT1_2; cl15260 596154002982 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 596154002983 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 596154002984 inhibitor site; inhibition site 596154002985 active site 596154002986 dimer interface [polypeptide binding]; other site 596154002987 catalytic residue [active] 596154002988 cell density-dependent motility repressor; Provisional; Region: PRK10082 596154002989 Helix-turn-helix domains; Region: HTH; cl00088 596154002990 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 596154002991 dimerization interface [polypeptide binding]; other site 596154002992 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 596154002993 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154002994 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 596154002995 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 596154002996 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 596154002997 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 596154002998 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 596154002999 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 596154003000 S-adenosylmethionine binding site [chemical binding]; other site 596154003001 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 596154003002 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 596154003003 active site 596154003004 (T/H)XGH motif; other site 596154003005 BON domain; Region: BON; cl02771 596154003006 CHASE3 domain; Region: CHASE3; cl05000 596154003007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 596154003008 Histidine kinase; Region: HisKA_3; pfam07730 596154003009 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 596154003010 ATP binding site [chemical binding]; other site 596154003011 Mg2+ binding site [ion binding]; other site 596154003012 G-X-G motif; other site 596154003013 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 596154003014 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 596154003015 active site 596154003016 phosphorylation site [posttranslational modification] 596154003017 intermolecular recognition site; other site 596154003018 dimerization interface [polypeptide binding]; other site 596154003019 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 596154003020 DNA binding residues [nucleotide binding] 596154003021 dimerization interface [polypeptide binding]; other site 596154003022 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 596154003023 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 596154003024 active site 596154003025 phosphorylation site [posttranslational modification] 596154003026 intermolecular recognition site; other site 596154003027 dimerization interface [polypeptide binding]; other site 596154003028 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 596154003029 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 596154003030 ATP binding site [chemical binding]; other site 596154003031 substrate interface [chemical binding]; other site 596154003032 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 596154003033 C-terminal peptidase (prc); Region: prc; TIGR00225 596154003034 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 596154003035 protein binding site [polypeptide binding]; other site 596154003036 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 596154003037 Catalytic dyad [active] 596154003038 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 596154003039 catalytic core [active] 596154003040 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 596154003041 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 596154003042 active site residue [active] 596154003043 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 596154003044 GSH binding site [chemical binding]; other site 596154003045 catalytic residues [active] 596154003046 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 596154003047 SecA binding site; other site 596154003048 Preprotein binding site; other site 596154003049 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 596154003050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003051 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 596154003052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003053 NMT1-like family; Region: NMT1_2; cl15260 596154003054 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 596154003055 Uncharacterized conserved protein [Function unknown]; Region: COG5476 596154003056 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 596154003057 MlrC C-terminus; Region: MlrC_C; pfam07171 596154003058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003059 NMT1-like family; Region: NMT1_2; cl15260 596154003060 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154003061 Helix-turn-helix domains; Region: HTH; cl00088 596154003062 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 596154003063 dimerization interface [polypeptide binding]; other site 596154003064 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154003065 pantoate--beta-alanine ligase; Region: panC; TIGR00018 596154003066 active site 596154003067 nucleotide binding site [chemical binding]; other site 596154003068 HIGH motif; other site 596154003069 KMSKS motif; other site 596154003070 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 596154003071 oligomerization interface [polypeptide binding]; other site 596154003072 active site 596154003073 metal binding site [ion binding]; metal-binding site 596154003074 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 596154003075 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 596154003076 dimerization interface [polypeptide binding]; other site 596154003077 active site 596154003078 Quinolinate synthetase A protein; Region: NadA; cl00420 596154003079 chorismate binding enzyme; Region: Chorismate_bind; cl10555 596154003080 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 596154003081 substrate-cofactor binding pocket; other site 596154003082 homodimer interface [polypeptide binding]; other site 596154003083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154003084 catalytic residue [active] 596154003085 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 596154003086 putative substrate binding pocket [chemical binding]; other site 596154003087 trimer interface [polypeptide binding]; other site 596154003088 L-aspartate oxidase; Provisional; Region: PRK09077 596154003089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003090 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 596154003091 Cupin domain; Region: Cupin_2; cl09118 596154003092 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 596154003093 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 596154003094 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 596154003095 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 596154003096 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154003097 ScpA/B protein; Region: ScpA_ScpB; cl00598 596154003098 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 596154003099 hypothetical protein; Validated; Region: PRK07586 596154003100 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 596154003101 PYR/PP interface [polypeptide binding]; other site 596154003102 dimer interface [polypeptide binding]; other site 596154003103 TPP binding site [chemical binding]; other site 596154003104 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 596154003105 TPP-binding site [chemical binding]; other site 596154003106 dimer interface [polypeptide binding]; other site 596154003107 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 596154003108 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 596154003109 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 596154003110 phosphate binding site [ion binding]; other site 596154003111 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 596154003112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003113 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 596154003114 Helix-turn-helix domain; Region: HTH_18; pfam12833 596154003115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 596154003116 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 596154003117 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 596154003118 catalytic triad [active] 596154003119 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 596154003120 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 596154003121 catalytic residue [active] 596154003122 benzoate transporter; Region: benE; TIGR00843 596154003123 Benzoate membrane transport protein; Region: BenE; pfam03594 596154003124 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 596154003125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154003126 DNA-binding site [nucleotide binding]; DNA binding site 596154003127 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 596154003128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154003129 homodimer interface [polypeptide binding]; other site 596154003130 catalytic residue [active] 596154003131 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 596154003132 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 596154003133 active site 596154003134 HIGH motif; other site 596154003135 KMSKS motif; other site 596154003136 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 596154003137 tRNA binding surface [nucleotide binding]; other site 596154003138 anticodon binding site; other site 596154003139 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 596154003140 dimer interface [polypeptide binding]; other site 596154003141 putative tRNA-binding site [nucleotide binding]; other site 596154003142 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 596154003143 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 596154003144 active site 596154003145 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 596154003146 Restriction endonuclease; Region: Mrr_cat; cl00516 596154003147 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 596154003148 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 596154003149 active site residue [active] 596154003150 selenophosphate synthetase; Provisional; Region: PRK00943 596154003151 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 596154003152 dimerization interface [polypeptide binding]; other site 596154003153 putative ATP binding site [chemical binding]; other site 596154003154 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 596154003155 gating phenylalanine in ion channel; other site 596154003156 Domain of unknown function DUF59; Region: DUF59; cl00941 596154003157 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 596154003158 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 596154003159 Walker A motif; other site 596154003160 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 596154003161 putative active site [active] 596154003162 putative catalytic site [active] 596154003163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003164 NMT1-like family; Region: NMT1_2; cl15260 596154003165 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154003166 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154003167 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154003168 active site 596154003169 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154003170 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154003171 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 596154003172 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154003173 DNA-binding site [nucleotide binding]; DNA binding site 596154003174 UTRA domain; Region: UTRA; cl01230 596154003175 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 596154003176 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 596154003177 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 596154003178 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 596154003179 putative dimer interface [polypeptide binding]; other site 596154003180 [2Fe-2S] cluster binding site [ion binding]; other site 596154003181 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 596154003182 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 596154003183 SLBB domain; Region: SLBB; pfam10531 596154003184 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 596154003185 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 596154003186 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 596154003187 catalytic loop [active] 596154003188 iron binding site [ion binding]; other site 596154003189 4Fe-4S binding domain; Region: Fer4; cl02805 596154003190 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 596154003191 [4Fe-4S] binding site [ion binding]; other site 596154003192 molybdopterin cofactor binding site; other site 596154003193 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 596154003194 molybdopterin cofactor binding site; other site 596154003195 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 596154003196 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 596154003197 4Fe-4S binding domain; Region: Fer4; cl02805 596154003198 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 596154003199 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 596154003200 4Fe-4S binding domain; Region: Fer4; cl02805 596154003201 4Fe-4S binding domain; Region: Fer4; cl02805 596154003202 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 596154003203 4Fe-4S binding domain; Region: Fer4; cl02805 596154003204 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 596154003205 Formylmethanofuran dehydrogenase subunit B [Energy production and conversion]; Region: FwdB; COG1029 596154003206 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 596154003207 [4Fe-4S] binding site [ion binding]; other site 596154003208 molybdopterin cofactor binding site; other site 596154003209 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 596154003210 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 596154003211 molybdopterin cofactor binding site; other site 596154003212 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 596154003213 4Fe-4S binding domain; Region: Fer4; cl02805 596154003214 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 596154003215 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 596154003216 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 596154003217 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 596154003218 FtsX-like permease family; Region: FtsX; cl15850 596154003219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 596154003220 AAA domain; Region: AAA_33; pfam13671 596154003221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154003222 active site 596154003223 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 596154003224 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 596154003225 apolar tunnel; other site 596154003226 heme binding site [chemical binding]; other site 596154003227 dimerization interface [polypeptide binding]; other site 596154003228 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 596154003229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154003230 DNA-binding site [nucleotide binding]; DNA binding site 596154003231 UTRA domain; Region: UTRA; cl01230 596154003232 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 596154003233 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 596154003234 tetramer interface [polypeptide binding]; other site 596154003235 active site 596154003236 Mg2+/Mn2+ binding site [ion binding]; other site 596154003237 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 596154003238 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 596154003239 substrate binding site [chemical binding]; other site 596154003240 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 596154003241 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 596154003242 substrate binding site [chemical binding]; other site 596154003243 ligand binding site [chemical binding]; other site 596154003244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003245 NMT1-like family; Region: NMT1_2; cl15260 596154003246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 596154003247 Smr domain; Region: Smr; cl02619 596154003248 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 596154003249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 596154003250 hypothetical protein; Reviewed; Region: PRK00024 596154003251 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 596154003252 MPN+ (JAMM) motif; other site 596154003253 Zinc-binding site [ion binding]; other site 596154003254 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 596154003255 LytB protein; Region: LYTB; cl00507 596154003256 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 596154003257 Domain of unknown function DUF21; Region: DUF21; pfam01595 596154003258 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 596154003259 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 596154003260 Transporter associated domain; Region: CorC_HlyC; cl08393 596154003261 FOG: CBS domain [General function prediction only]; Region: COG0517 596154003262 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 596154003263 seryl-tRNA synthetase; Provisional; Region: PRK05431 596154003264 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 596154003265 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 596154003266 dimer interface [polypeptide binding]; other site 596154003267 active site 596154003268 motif 1; other site 596154003269 motif 2; other site 596154003270 motif 3; other site 596154003271 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 596154003272 integrase; Provisional; Region: PRK09692 596154003273 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 596154003274 active site 596154003275 Int/Topo IB signature motif; other site 596154003276 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 596154003277 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 596154003278 sequence-specific DNA binding site [nucleotide binding]; other site 596154003279 salt bridge; other site 596154003280 AAA domain; Region: AAA_25; pfam13481 596154003281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154003282 Walker A motif; other site 596154003283 ATP binding site [chemical binding]; other site 596154003284 Walker B motif; other site 596154003285 FRG domain; Region: FRG; cl07460 596154003286 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 596154003287 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 596154003288 Bacterial sugar transferase; Region: Bac_transf; cl00939 596154003289 CHASE2 domain; Region: CHASE2; cl01732 596154003290 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 596154003291 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 596154003292 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 596154003293 ATP binding site [chemical binding]; other site 596154003294 Mg2+ binding site [ion binding]; other site 596154003295 G-X-G motif; other site 596154003296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 596154003297 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 596154003298 putative peptidoglycan binding site; other site 596154003299 FecR protein; Region: FecR; pfam04773 596154003300 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 596154003301 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 596154003302 active site 596154003303 phosphorylation site [posttranslational modification] 596154003304 intermolecular recognition site; other site 596154003305 dimerization interface [polypeptide binding]; other site 596154003306 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 596154003307 DNA binding site [nucleotide binding] 596154003308 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 596154003309 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 596154003310 active site 596154003311 HIGH motif; other site 596154003312 dimer interface [polypeptide binding]; other site 596154003313 KMSKS motif; other site 596154003314 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 596154003315 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 596154003316 active site 596154003317 putative substrate binding region [chemical binding]; other site 596154003318 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154003319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154003320 dimer interface [polypeptide binding]; other site 596154003321 putative CheW interface [polypeptide binding]; other site 596154003322 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 596154003323 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 596154003324 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 596154003325 dimerization interface [polypeptide binding]; other site 596154003326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154003327 dimer interface [polypeptide binding]; other site 596154003328 putative CheW interface [polypeptide binding]; other site 596154003329 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 596154003330 DHH family; Region: DHH; pfam01368 596154003331 DHHA1 domain; Region: DHHA1; pfam02272 596154003332 Sulfatase; Region: Sulfatase; cl10460 596154003333 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 596154003334 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 596154003335 FtsX-like permease family; Region: FtsX; cl15850 596154003336 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 596154003337 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 596154003338 Walker A/P-loop; other site 596154003339 ATP binding site [chemical binding]; other site 596154003340 Q-loop/lid; other site 596154003341 ABC transporter signature motif; other site 596154003342 Walker B; other site 596154003343 D-loop; other site 596154003344 H-loop/switch region; other site 596154003345 Cytochrome c; Region: Cytochrom_C; cl11414 596154003346 Dehydratase family; Region: ILVD_EDD; cl00340 596154003347 Dehydratase family; Region: ILVD_EDD; cl00340 596154003348 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 596154003349 CoenzymeA binding site [chemical binding]; other site 596154003350 subunit interaction site [polypeptide binding]; other site 596154003351 PHB binding site; other site 596154003352 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 596154003353 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 596154003354 heme binding site [chemical binding]; other site 596154003355 ferroxidase pore; other site 596154003356 ferroxidase diiron center [ion binding]; other site 596154003357 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 596154003358 Transcriptional regulators [Transcription]; Region: GntR; COG1802 596154003359 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154003360 DNA-binding site [nucleotide binding]; DNA binding site 596154003361 FCD domain; Region: FCD; cl11656 596154003362 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 596154003363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003364 NMT1-like family; Region: NMT1_2; cl15260 596154003365 enoyl-CoA hydratase; Provisional; Region: PRK06144 596154003366 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 596154003367 substrate binding site [chemical binding]; other site 596154003368 oxyanion hole (OAH) forming residues; other site 596154003369 trimer interface [polypeptide binding]; other site 596154003370 malonyl-CoA synthase; Validated; Region: PRK07514 596154003371 AMP-binding enzyme; Region: AMP-binding; cl15778 596154003372 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 596154003373 Ligand Binding Site [chemical binding]; other site 596154003374 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 596154003375 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154003376 metal-binding site [ion binding] 596154003377 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154003378 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154003379 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 596154003380 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 596154003381 Low-spin heme binding site [chemical binding]; other site 596154003382 Putative water exit pathway; other site 596154003383 Binuclear center (active site) [active] 596154003384 Putative proton exit pathway; other site 596154003385 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 596154003386 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; cl00282 596154003387 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 596154003388 Cytochrome c; Region: Cytochrom_C; cl11414 596154003389 Cytochrome c; Region: Cytochrom_C; cl11414 596154003390 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 596154003391 4Fe-4S binding domain; Region: Fer4_5; pfam12801 596154003392 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 596154003393 FixH; Region: FixH; cl01254 596154003394 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 596154003395 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 596154003396 ligand binding site [chemical binding]; other site 596154003397 flexible hinge region; other site 596154003398 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 596154003399 putative switch regulator; other site 596154003400 non-specific DNA interactions [nucleotide binding]; other site 596154003401 DNA binding site [nucleotide binding] 596154003402 sequence specific DNA binding site [nucleotide binding]; other site 596154003403 putative cAMP binding site [chemical binding]; other site 596154003404 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 596154003405 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 596154003406 FeS/SAM binding site; other site 596154003407 HemN C-terminal domain; Region: HemN_C; pfam06969 596154003408 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 596154003409 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 596154003410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 596154003411 Zn2+ binding site [ion binding]; other site 596154003412 Mg2+ binding site [ion binding]; other site 596154003413 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 596154003414 PAS domain; Region: PAS_9; pfam13426 596154003415 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 596154003416 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 596154003417 PAS domain; Region: PAS_9; pfam13426 596154003418 putative active site [active] 596154003419 heme pocket [chemical binding]; other site 596154003420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154003421 metal binding site [ion binding]; metal-binding site 596154003422 active site 596154003423 I-site; other site 596154003424 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 596154003425 Cell division protein ZapA; Region: ZapA; cl01146 596154003426 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 596154003427 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 596154003428 N-terminal plug; other site 596154003429 ligand-binding site [chemical binding]; other site 596154003430 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 596154003431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154003432 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 596154003433 catalytic triad [active] 596154003434 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154003435 Walker A motif; other site 596154003436 ATP binding site [chemical binding]; other site 596154003437 Walker B motif; other site 596154003438 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 596154003439 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 596154003440 intersubunit interface [polypeptide binding]; other site 596154003441 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 596154003442 dimer interface [polypeptide binding]; other site 596154003443 putative PBP binding regions; other site 596154003444 ABC-ATPase subunit interface; other site 596154003445 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 596154003446 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154003447 Walker A/P-loop; other site 596154003448 ATP binding site [chemical binding]; other site 596154003449 Q-loop/lid; other site 596154003450 ABC transporter signature motif; other site 596154003451 Walker B; other site 596154003452 D-loop; other site 596154003453 H-loop/switch region; other site 596154003454 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 596154003455 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 596154003456 homodimer interface [polypeptide binding]; other site 596154003457 Walker A motif; other site 596154003458 ATP binding site [chemical binding]; other site 596154003459 hydroxycobalamin binding site [chemical binding]; other site 596154003460 Walker B motif; other site 596154003461 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 596154003462 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 596154003463 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 596154003464 DNA binding site [nucleotide binding] 596154003465 active site 596154003466 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 596154003467 S-adenosylmethionine binding site [chemical binding]; other site 596154003468 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 596154003469 active site 596154003470 FMN binding site [chemical binding]; other site 596154003471 substrate binding site [chemical binding]; other site 596154003472 homotetramer interface [polypeptide binding]; other site 596154003473 catalytic residue [active] 596154003474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003475 NMT1-like family; Region: NMT1_2; cl15260 596154003476 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154003477 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154003478 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154003479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003480 NAD(P) binding site [chemical binding]; other site 596154003481 active site 596154003482 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 596154003483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003484 NAD(P) binding site [chemical binding]; other site 596154003485 active site 596154003486 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154003487 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154003488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003489 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 596154003490 NAD(P) binding site [chemical binding]; other site 596154003491 active site 596154003492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003493 NMT1-like family; Region: NMT1_2; cl15260 596154003494 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 596154003495 enoyl-CoA hydratase; Provisional; Region: PRK06688 596154003496 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 596154003497 substrate binding site [chemical binding]; other site 596154003498 oxyanion hole (OAH) forming residues; other site 596154003499 trimer interface [polypeptide binding]; other site 596154003500 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 596154003501 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154003502 active site 596154003503 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154003504 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154003505 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154003506 Helix-turn-helix domains; Region: HTH; cl00088 596154003507 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154003508 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 596154003509 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 596154003510 substrate binding site [chemical binding]; other site 596154003511 oxyanion hole (OAH) forming residues; other site 596154003512 trimer interface [polypeptide binding]; other site 596154003513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003514 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154003515 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154003516 enoyl-CoA hydratase; Provisional; Region: PRK06688 596154003517 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 596154003518 substrate binding site [chemical binding]; other site 596154003519 oxyanion hole (OAH) forming residues; other site 596154003520 trimer interface [polypeptide binding]; other site 596154003521 thiolase; Provisional; Region: PRK06158 596154003522 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154003523 active site 596154003524 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154003525 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 596154003526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003527 CoA-ligase; Region: Ligase_CoA; cl02894 596154003528 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154003529 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154003530 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154003531 active site 596154003532 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 596154003533 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 596154003534 substrate binding site [chemical binding]; other site 596154003535 oxyanion hole (OAH) forming residues; other site 596154003536 trimer interface [polypeptide binding]; other site 596154003537 thiolase; Provisional; Region: PRK06158 596154003538 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154003539 active site 596154003540 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 596154003541 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154003542 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 596154003543 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 596154003544 dimer interface [polypeptide binding]; other site 596154003545 active site 596154003546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003547 NMT1-like family; Region: NMT1_2; cl15260 596154003548 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 596154003549 Ligand binding site [chemical binding]; other site 596154003550 Electron transfer flavoprotein domain; Region: ETF; pfam01012 596154003551 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 596154003552 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 596154003553 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 596154003554 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 596154003555 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 596154003556 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154003557 active site 596154003558 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 596154003559 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 596154003560 FAD binding site [chemical binding]; other site 596154003561 substrate binding site [chemical binding]; other site 596154003562 catalytic base [active] 596154003563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003564 NMT1-like family; Region: NMT1_2; cl15260 596154003565 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 596154003566 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 596154003567 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 596154003568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154003569 homodimer interface [polypeptide binding]; other site 596154003570 catalytic residue [active] 596154003571 homoserine dehydrogenase; Provisional; Region: PRK06349 596154003572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003573 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 596154003574 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 596154003575 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 596154003576 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 596154003577 oligomeric interface; other site 596154003578 putative active site [active] 596154003579 homodimer interface [polypeptide binding]; other site 596154003580 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 596154003581 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 596154003582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154003583 catalytic residue [active] 596154003584 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 596154003585 Walker A motif; other site 596154003586 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 596154003587 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 596154003588 dimer interface [polypeptide binding]; other site 596154003589 putative functional site; other site 596154003590 putative MPT binding site; other site 596154003591 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 596154003592 MoaE interaction surface [polypeptide binding]; other site 596154003593 MoeB interaction surface [polypeptide binding]; other site 596154003594 thiocarboxylated glycine; other site 596154003595 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 596154003596 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 596154003597 dimer interface [polypeptide binding]; other site 596154003598 active site 596154003599 catalytic residue [active] 596154003600 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 596154003601 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 596154003602 MoaE homodimer interface [polypeptide binding]; other site 596154003603 MoaD interaction [polypeptide binding]; other site 596154003604 active site residues [active] 596154003605 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 596154003606 Clp amino terminal domain; Region: Clp_N; pfam02861 596154003607 Clp amino terminal domain; Region: Clp_N; pfam02861 596154003608 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 596154003609 Walker A motif; other site 596154003610 ATP binding site [chemical binding]; other site 596154003611 Walker B motif; other site 596154003612 arginine finger; other site 596154003613 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 596154003614 Walker A motif; other site 596154003615 ATP binding site [chemical binding]; other site 596154003616 Walker B motif; other site 596154003617 arginine finger; other site 596154003618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 596154003619 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154003620 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 596154003621 NAD(P) binding site [chemical binding]; other site 596154003622 catalytic residues [active] 596154003623 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 596154003624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 596154003625 Coenzyme A binding pocket [chemical binding]; other site 596154003626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003627 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 596154003628 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 596154003629 FMN binding site [chemical binding]; other site 596154003630 active site 596154003631 catalytic residues [active] 596154003632 substrate binding site [chemical binding]; other site 596154003633 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 596154003634 putative active site [active] 596154003635 catalytic site [active] 596154003636 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 596154003637 PLD-like domain; Region: PLDc_2; pfam13091 596154003638 putative active site [active] 596154003639 catalytic site [active] 596154003640 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 596154003641 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 596154003642 catalytic motif [active] 596154003643 Zn binding site [ion binding]; other site 596154003644 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 596154003645 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 596154003646 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 596154003647 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 596154003648 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 596154003649 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 596154003650 PilX N-terminal; Region: PilX_N; pfam14341 596154003651 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 596154003652 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 596154003653 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 596154003654 Type II transport protein GspH; Region: GspH; pfam12019 596154003655 CobD/Cbib protein; Region: CobD_Cbib; cl00561 596154003656 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 596154003657 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 596154003658 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 596154003659 cobyric acid synthase; Provisional; Region: PRK00784 596154003660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154003661 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 596154003662 catalytic triad [active] 596154003663 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 596154003664 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 596154003665 active site pocket [active] 596154003666 putative dimer interface [polypeptide binding]; other site 596154003667 putative cataytic base [active] 596154003668 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 596154003669 ADP-ribose binding site [chemical binding]; other site 596154003670 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 596154003671 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 596154003672 minor groove reading motif; other site 596154003673 helix-hairpin-helix signature motif; other site 596154003674 substrate binding pocket [chemical binding]; other site 596154003675 active site 596154003676 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 596154003677 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154003678 Helix-turn-helix domains; Region: HTH; cl00088 596154003679 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 596154003680 dimerization interface [polypeptide binding]; other site 596154003681 amidase; Provisional; Region: PRK07486 596154003682 Amidase; Region: Amidase; cl11426 596154003683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003684 NMT1-like family; Region: NMT1_2; cl15260 596154003685 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 596154003686 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 596154003687 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 596154003688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154003689 homodimer interface [polypeptide binding]; other site 596154003690 catalytic residue [active] 596154003691 SlyX; Region: SlyX; cl01090 596154003692 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 596154003693 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 596154003694 active site 596154003695 catalytic tetrad [active] 596154003696 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 596154003697 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 596154003698 heme-binding site [chemical binding]; other site 596154003699 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 596154003700 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 596154003701 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 596154003702 Helix-turn-helix domains; Region: HTH; cl00088 596154003703 Rrf2 family protein; Region: rrf2_super; TIGR00738 596154003704 PrkA family serine protein kinase; Provisional; Region: PRK15455 596154003705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154003706 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 596154003707 Uncharacterized conserved protein [Function unknown]; Region: COG2718 596154003708 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 596154003709 SpoVR family protein; Provisional; Region: PRK11767 596154003710 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 596154003711 NMT1-like family; Region: NMT1_2; cl15260 596154003712 Histidine kinase; Region: His_kinase; pfam06580 596154003713 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 596154003714 argininosuccinate lyase; Provisional; Region: PRK00855 596154003715 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 596154003716 active sites [active] 596154003717 tetramer interface [polypeptide binding]; other site 596154003718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003719 NMT1-like family; Region: NMT1_2; cl15260 596154003720 Bacterial Ig-like domain; Region: Big_5; cl01012 596154003721 Bacterial Ig-like domain; Region: Big_5; cl01012 596154003722 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 596154003723 MG2 domain; Region: A2M_N; pfam01835 596154003724 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 596154003725 Alpha-2-macroglobulin family; Region: A2M; pfam00207 596154003726 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 596154003727 active site 596154003728 metal binding site [ion binding]; metal-binding site 596154003729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154003730 Helix-turn-helix domains; Region: HTH; cl00088 596154003731 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 596154003732 dimerization interface [polypeptide binding]; other site 596154003733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003734 NMT1-like family; Region: NMT1_2; cl15260 596154003735 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 596154003736 active site 596154003737 homotetramer interface [polypeptide binding]; other site 596154003738 homodimer interface [polypeptide binding]; other site 596154003739 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154003740 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154003741 active site 596154003742 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 596154003743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003744 CoA-ligase; Region: Ligase_CoA; cl02894 596154003745 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154003746 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154003747 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154003748 active site 596154003749 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154003750 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154003751 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 596154003752 substrate binding site [chemical binding]; other site 596154003753 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 596154003754 Transglycosylase; Region: Transgly; cl07896 596154003755 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154003756 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 596154003757 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 596154003758 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 596154003759 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154003760 metal binding site [ion binding]; metal-binding site 596154003761 active site 596154003762 I-site; other site 596154003763 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154003764 ligand binding site [chemical binding]; other site 596154003765 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 596154003766 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 596154003767 phosphate binding site [ion binding]; other site 596154003768 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154003769 active site 596154003770 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154003771 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154003772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154003773 NMT1-like family; Region: NMT1_2; cl15260 596154003774 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 596154003775 Helix-turn-helix domains; Region: HTH; cl00088 596154003776 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 596154003777 putative dimerization interface [polypeptide binding]; other site 596154003778 putative substrate binding pocket [chemical binding]; other site 596154003779 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 596154003780 active site 596154003781 DNA polymerase IV; Validated; Region: PRK02406 596154003782 DNA binding site [nucleotide binding] 596154003783 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 596154003784 PAS domain; Region: PAS_9; pfam13426 596154003785 putative active site [active] 596154003786 heme pocket [chemical binding]; other site 596154003787 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154003788 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154003789 dimer interface [polypeptide binding]; other site 596154003790 putative CheW interface [polypeptide binding]; other site 596154003791 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 596154003792 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 596154003793 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 596154003794 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 596154003795 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 596154003796 Protein of unknown function (DUF328); Region: DUF328; cl01143 596154003797 ribonuclease E; Reviewed; Region: rne; PRK10811 596154003798 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 596154003799 homodimer interface [polypeptide binding]; other site 596154003800 oligonucleotide binding site [chemical binding]; other site 596154003801 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 596154003802 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 596154003803 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 596154003804 active site 596154003805 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 596154003806 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 596154003807 motif II; other site 596154003808 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 596154003809 iron-sulfur cluster [ion binding]; other site 596154003810 [2Fe-2S] cluster binding site [ion binding]; other site 596154003811 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 596154003812 tandem repeat interface [polypeptide binding]; other site 596154003813 oligomer interface [polypeptide binding]; other site 596154003814 active site residues [active] 596154003815 Predicted methyltransferases [General function prediction only]; Region: COG0313 596154003816 Maf-like protein; Region: Maf; pfam02545 596154003817 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 596154003818 active site 596154003819 dimer interface [polypeptide binding]; other site 596154003820 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 596154003821 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 596154003822 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 596154003823 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 596154003824 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 596154003825 dimer interface [polypeptide binding]; other site 596154003826 active site 596154003827 CoA binding pocket [chemical binding]; other site 596154003828 Acyl transferase domain; Region: Acyl_transf_1; cl08282 596154003829 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 596154003830 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 596154003831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003832 NAD(P) binding site [chemical binding]; other site 596154003833 active site 596154003834 Phosphopantetheine attachment site; Region: PP-binding; cl09936 596154003835 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 596154003836 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 596154003837 dimer interface [polypeptide binding]; other site 596154003838 active site 596154003839 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 596154003840 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 596154003841 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 596154003842 DNA binding residues [nucleotide binding] 596154003843 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 596154003844 MucB/RseB family; Region: MucB_RseB; pfam03888 596154003845 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 596154003846 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 596154003847 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 596154003848 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 596154003849 protein binding site [polypeptide binding]; other site 596154003850 GTP-binding protein LepA; Provisional; Region: PRK05433 596154003851 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 596154003852 G1 box; other site 596154003853 putative GEF interaction site [polypeptide binding]; other site 596154003854 GTP/Mg2+ binding site [chemical binding]; other site 596154003855 Switch I region; other site 596154003856 G2 box; other site 596154003857 G3 box; other site 596154003858 Switch II region; other site 596154003859 G4 box; other site 596154003860 G5 box; other site 596154003861 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 596154003862 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 596154003863 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 596154003864 signal peptidase I; Provisional; Region: PRK10861 596154003865 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 596154003866 Catalytic site [active] 596154003867 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 596154003868 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 596154003869 dimerization interface [polypeptide binding]; other site 596154003870 active site 596154003871 metal binding site [ion binding]; metal-binding site 596154003872 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 596154003873 GTPase Era; Reviewed; Region: era; PRK00089 596154003874 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 596154003875 G1 box; other site 596154003876 GTP/Mg2+ binding site [chemical binding]; other site 596154003877 Switch I region; other site 596154003878 G2 box; other site 596154003879 Switch II region; other site 596154003880 G3 box; other site 596154003881 G4 box; other site 596154003882 G5 box; other site 596154003883 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 596154003884 Recombination protein O N terminal; Region: RecO_N; cl15812 596154003885 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 596154003886 Recombination protein O C terminal; Region: RecO_C; pfam02565 596154003887 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 596154003888 active site 596154003889 hydrophilic channel; other site 596154003890 dimerization interface [polypeptide binding]; other site 596154003891 catalytic residues [active] 596154003892 active site lid [active] 596154003893 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 596154003894 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 596154003895 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 596154003896 active site 596154003897 ADP/pyrophosphate binding site [chemical binding]; other site 596154003898 dimerization interface [polypeptide binding]; other site 596154003899 allosteric effector site; other site 596154003900 fructose-1,6-bisphosphate binding site; other site 596154003901 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 596154003902 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 596154003903 Walker A/P-loop; other site 596154003904 ATP binding site [chemical binding]; other site 596154003905 Q-loop/lid; other site 596154003906 ABC transporter signature motif; other site 596154003907 Walker B; other site 596154003908 D-loop; other site 596154003909 H-loop/switch region; other site 596154003910 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 596154003911 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 596154003912 Walker A/P-loop; other site 596154003913 ATP binding site [chemical binding]; other site 596154003914 Q-loop/lid; other site 596154003915 ABC transporter signature motif; other site 596154003916 Walker B; other site 596154003917 D-loop; other site 596154003918 H-loop/switch region; other site 596154003919 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 596154003920 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 596154003921 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 596154003922 TM-ABC transporter signature motif; other site 596154003923 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 596154003924 TM-ABC transporter signature motif; other site 596154003925 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 596154003926 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 596154003927 dimerization interface [polypeptide binding]; other site 596154003928 ligand binding site [chemical binding]; other site 596154003929 Mechanosensitive ion channel; Region: MS_channel; pfam00924 596154003930 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 596154003931 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 596154003932 dimer interface [polypeptide binding]; other site 596154003933 putative anticodon binding site; other site 596154003934 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 596154003935 motif 1; other site 596154003936 active site 596154003937 motif 2; other site 596154003938 motif 3; other site 596154003939 Bacterial sugar transferase; Region: Bac_transf; cl00939 596154003940 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 596154003941 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 596154003942 inhibitor-cofactor binding pocket; inhibition site 596154003943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154003944 catalytic residue [active] 596154003945 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 596154003946 S-adenosylmethionine binding site [chemical binding]; other site 596154003947 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 596154003948 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 596154003949 Ligand binding site; other site 596154003950 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 596154003951 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 596154003952 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 596154003953 trimer interface [polypeptide binding]; other site 596154003954 active site 596154003955 substrate binding site [chemical binding]; other site 596154003956 CoA binding site [chemical binding]; other site 596154003957 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 596154003958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003959 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 596154003960 NAD(P) binding site [chemical binding]; other site 596154003961 homodimer interface [polypeptide binding]; other site 596154003962 substrate binding site [chemical binding]; other site 596154003963 active site 596154003964 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 596154003965 YGGT family; Region: YGGT; cl00508 596154003966 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 596154003967 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154003968 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 596154003969 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 596154003970 substrate binding site [chemical binding]; other site 596154003971 active site 596154003972 catalytic residues [active] 596154003973 heterodimer interface [polypeptide binding]; other site 596154003974 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 596154003975 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 596154003976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154003977 catalytic residue [active] 596154003978 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 596154003979 active site 596154003980 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 596154003981 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 596154003982 dimerization interface 3.5A [polypeptide binding]; other site 596154003983 active site 596154003984 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 596154003985 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 596154003986 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 596154003987 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 596154003988 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 596154003989 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 596154003990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154003991 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 596154003992 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 596154003993 tartrate dehydrogenase; Provisional; Region: PRK08194 596154003994 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 596154003995 substrate binding site [chemical binding]; other site 596154003996 Entericidin EcnA/B family; Region: Entericidin; cl02322 596154003997 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 596154003998 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 596154003999 substrate binding site [chemical binding]; other site 596154004000 ligand binding site [chemical binding]; other site 596154004001 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154004002 Helix-turn-helix domains; Region: HTH; cl00088 596154004003 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 596154004004 putative dimerization interface [polypeptide binding]; other site 596154004005 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 596154004006 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154004007 Beta-Casp domain; Region: Beta-Casp; cl12567 596154004008 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 596154004009 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 596154004010 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 596154004011 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 596154004012 Flavoprotein; Region: Flavoprotein; cl08021 596154004013 DGC domain; Region: DGC; cl01742 596154004014 SCP-2 sterol transfer family; Region: SCP2; cl01225 596154004015 Peptidase family U32; Region: Peptidase_U32; cl03113 596154004016 Peptidase family U32; Region: Peptidase_U32; cl03113 596154004017 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 596154004018 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 596154004019 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154004020 catalytic residue [active] 596154004021 chaperone protein DnaJ; Provisional; Region: PRK10767 596154004022 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 596154004023 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 596154004024 substrate binding site [polypeptide binding]; other site 596154004025 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 596154004026 Zn binding sites [ion binding]; other site 596154004027 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 596154004028 dimer interface [polypeptide binding]; other site 596154004029 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 596154004030 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 596154004031 dimer interface [polypeptide binding]; other site 596154004032 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 596154004033 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 596154004034 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 596154004035 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 596154004036 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 596154004037 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 596154004038 replicative DNA helicase; Region: DnaB; TIGR00665 596154004039 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 596154004040 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 596154004041 Walker A motif; other site 596154004042 ATP binding site [chemical binding]; other site 596154004043 Walker B motif; other site 596154004044 DNA binding loops [nucleotide binding] 596154004045 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 596154004046 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154004047 tetrameric interface [polypeptide binding]; other site 596154004048 NAD binding site [chemical binding]; other site 596154004049 catalytic residues [active] 596154004050 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 596154004051 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 596154004052 putative active site [active] 596154004053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154004054 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 596154004055 catalytic triad [active] 596154004056 Chemotaxis phosphatase CheX; Region: CheX; cl15816 596154004057 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 596154004058 YceI-like domain; Region: YceI; cl01001 596154004059 YceI-like domain; Region: YceI; cl01001 596154004060 malic enzyme; Reviewed; Region: PRK12862 596154004061 Malic enzyme, N-terminal domain; Region: malic; pfam00390 596154004062 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 596154004063 putative NAD(P) binding site [chemical binding]; other site 596154004064 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 596154004065 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 596154004066 xanthine permease; Region: pbuX; TIGR03173 596154004067 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 596154004068 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154004069 dimer interface [polypeptide binding]; other site 596154004070 putative CheW interface [polypeptide binding]; other site 596154004071 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 596154004072 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 596154004073 putative metal binding site [ion binding]; other site 596154004074 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 596154004075 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 596154004076 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 596154004077 active site 596154004078 metal binding site [ion binding]; metal-binding site 596154004079 dimer interface [polypeptide binding]; other site 596154004080 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 596154004081 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 596154004082 active site 596154004083 catalytic site [active] 596154004084 tetramer interface [polypeptide binding]; other site 596154004085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154004086 DNA-binding site [nucleotide binding]; DNA binding site 596154004087 FCD domain; Region: FCD; cl11656 596154004088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154004089 Helix-turn-helix domains; Region: HTH; cl00088 596154004090 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 596154004091 putative effector binding pocket; other site 596154004092 putative dimerization interface [polypeptide binding]; other site 596154004093 tartrate dehydrogenase; Provisional; Region: PRK08194 596154004094 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 596154004095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004096 NMT1-like family; Region: NMT1_2; cl15260 596154004097 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 596154004098 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 596154004099 MOFRL family; Region: MOFRL; pfam05161 596154004100 cell density-dependent motility repressor; Provisional; Region: PRK10082 596154004101 Helix-turn-helix domains; Region: HTH; cl00088 596154004102 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 596154004103 dimerization interface [polypeptide binding]; other site 596154004104 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 596154004105 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 596154004106 inhibitor-cofactor binding pocket; inhibition site 596154004107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154004108 catalytic residue [active] 596154004109 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 596154004110 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 596154004111 substrate binding pocket [chemical binding]; other site 596154004112 membrane-bound complex binding site; other site 596154004113 hinge residues; other site 596154004114 transcriptional regulator; Provisional; Region: PRK10632 596154004115 Helix-turn-helix domains; Region: HTH; cl00088 596154004116 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 596154004117 putative effector binding pocket; other site 596154004118 dimerization interface [polypeptide binding]; other site 596154004119 glyoxylate carboligase; Provisional; Region: PRK11269 596154004120 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 596154004121 PYR/PP interface [polypeptide binding]; other site 596154004122 dimer interface [polypeptide binding]; other site 596154004123 TPP binding site [chemical binding]; other site 596154004124 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 596154004125 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 596154004126 TPP-binding site [chemical binding]; other site 596154004127 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 596154004128 tartronate semialdehyde reductase; Provisional; Region: PRK15059 596154004129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154004130 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 596154004131 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 596154004132 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 596154004133 active site 596154004134 homotetramer interface [polypeptide binding]; other site 596154004135 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 596154004136 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 596154004137 XdhC Rossmann domain; Region: XdhC_C; pfam13478 596154004138 Protein of unknown function (DUF989); Region: DUF989; pfam06181 596154004139 Predicted membrane protein [Function unknown]; Region: COG3748 596154004140 Cytochrome c; Region: Cytochrom_C; cl11414 596154004141 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 596154004142 trimer interface [polypeptide binding]; other site 596154004143 active site 596154004144 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 596154004145 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 596154004146 DEAD-like helicases superfamily; Region: DEXDc; smart00487 596154004147 ATP binding site [chemical binding]; other site 596154004148 Mg++ binding site [ion binding]; other site 596154004149 motif III; other site 596154004150 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 596154004151 nucleotide binding region [chemical binding]; other site 596154004152 ATP-binding site [chemical binding]; other site 596154004153 NosL; Region: NosL; cl01769 596154004154 NosL; Region: NosL; cl01769 596154004155 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154004156 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 596154004157 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 596154004158 Walker A/P-loop; other site 596154004159 ATP binding site [chemical binding]; other site 596154004160 Q-loop/lid; other site 596154004161 ABC transporter signature motif; other site 596154004162 Walker B; other site 596154004163 D-loop; other site 596154004164 H-loop/switch region; other site 596154004165 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 596154004166 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 596154004167 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 596154004168 FMN-binding domain; Region: FMN_bind; cl01081 596154004169 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 596154004170 4Fe-4S binding domain; Region: Fer4_5; pfam12801 596154004171 4Fe-4S binding domain; Region: Fer4_5; pfam12801 596154004172 nitrous-oxide reductase; Validated; Region: PRK02888 596154004173 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154004174 Cytochrome c; Region: Cytochrom_C; cl11414 596154004175 ApbE family; Region: ApbE; cl00643 596154004176 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 596154004177 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 596154004178 active site 596154004179 metal binding site [ion binding]; metal-binding site 596154004180 H-NS histone family; Region: Histone_HNS; pfam00816 596154004181 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 596154004182 aconitate hydratase; Validated; Region: PRK09277 596154004183 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 596154004184 substrate binding site [chemical binding]; other site 596154004185 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 596154004186 ligand binding site [chemical binding]; other site 596154004187 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 596154004188 substrate binding site [chemical binding]; other site 596154004189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154004190 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 596154004191 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154004192 putative substrate translocation pore; other site 596154004193 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 596154004194 putative substrate translocation pore; other site 596154004195 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 596154004196 active site 596154004197 phosphorylation site [posttranslational modification] 596154004198 intermolecular recognition site; other site 596154004199 dimerization interface [polypeptide binding]; other site 596154004200 LytTr DNA-binding domain; Region: LytTR; cl04498 596154004201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 596154004202 Histidine kinase; Region: His_kinase; pfam06580 596154004203 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 596154004204 2TM domain; Region: 2TM; pfam13239 596154004205 Bacitracin resistance protein BacA; Region: BacA; cl00858 596154004206 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154004207 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 596154004208 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 596154004209 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 596154004210 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 596154004211 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 596154004212 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 596154004213 Protein export membrane protein; Region: SecD_SecF; cl14618 596154004214 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154004215 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 596154004216 MutS domain I; Region: MutS_I; pfam01624 596154004217 MutS domain II; Region: MutS_II; pfam05188 596154004218 MutS family domain IV; Region: MutS_IV; pfam05190 596154004219 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 596154004220 Walker A/P-loop; other site 596154004221 ATP binding site [chemical binding]; other site 596154004222 Q-loop/lid; other site 596154004223 ABC transporter signature motif; other site 596154004224 Walker B; other site 596154004225 D-loop; other site 596154004226 H-loop/switch region; other site 596154004227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154004228 Helix-turn-helix domains; Region: HTH; cl00088 596154004229 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154004230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004231 NMT1-like family; Region: NMT1_2; cl15260 596154004232 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 596154004233 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 596154004234 phosphate binding site [ion binding]; other site 596154004235 Helix-turn-helix domains; Region: HTH; cl00088 596154004236 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 596154004237 dimerization interface [polypeptide binding]; other site 596154004238 PhoD-like phosphatase; Region: PhoD; pfam09423 596154004239 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 596154004240 putative active site [active] 596154004241 putative metal binding site [ion binding]; other site 596154004242 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 596154004243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154004244 metal binding site [ion binding]; metal-binding site 596154004245 active site 596154004246 I-site; other site 596154004247 Survival protein SurE; Region: SurE; cl00448 596154004248 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 596154004249 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 596154004250 S-adenosylmethionine binding site [chemical binding]; other site 596154004251 autolysin; Reviewed; Region: PRK06347 596154004252 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 596154004253 putative peptidoglycan binding site; other site 596154004254 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 596154004255 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 596154004256 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 596154004257 RNA binding surface [nucleotide binding]; other site 596154004258 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 596154004259 active site 596154004260 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 596154004261 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 596154004262 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 596154004263 RNA binding surface [nucleotide binding]; other site 596154004264 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 596154004265 probable active site [active] 596154004266 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 596154004267 active site 596154004268 multimer interface [polypeptide binding]; other site 596154004269 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 596154004270 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 596154004271 FeS/SAM binding site; other site 596154004272 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 596154004273 binding surface 596154004274 TPR motif; other site 596154004275 TPR repeat; Region: TPR_11; pfam13414 596154004276 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 596154004277 binding surface 596154004278 TPR motif; other site 596154004279 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 596154004280 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 596154004281 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 596154004282 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 596154004283 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 596154004284 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 596154004285 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 596154004286 dimer interface [polypeptide binding]; other site 596154004287 motif 1; other site 596154004288 active site 596154004289 motif 2; other site 596154004290 motif 3; other site 596154004291 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 596154004292 anticodon binding site; other site 596154004293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 596154004294 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 596154004295 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 596154004296 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 596154004297 Trp docking motif [polypeptide binding]; other site 596154004298 active site 596154004299 GTP-binding protein Der; Reviewed; Region: PRK00093 596154004300 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 596154004301 G1 box; other site 596154004302 GTP/Mg2+ binding site [chemical binding]; other site 596154004303 Switch I region; other site 596154004304 G2 box; other site 596154004305 Switch II region; other site 596154004306 G3 box; other site 596154004307 G4 box; other site 596154004308 G5 box; other site 596154004309 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 596154004310 G1 box; other site 596154004311 GTP/Mg2+ binding site [chemical binding]; other site 596154004312 Switch I region; other site 596154004313 G2 box; other site 596154004314 G3 box; other site 596154004315 Switch II region; other site 596154004316 G4 box; other site 596154004317 G5 box; other site 596154004318 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 596154004319 Sm1 motif; other site 596154004320 intra - hexamer interaction site; other site 596154004321 inter - hexamer interaction site [polypeptide binding]; other site 596154004322 nucleotide binding pocket [chemical binding]; other site 596154004323 Sm2 motif; other site 596154004324 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 596154004325 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 596154004326 HflX GTPase family; Region: HflX; cd01878 596154004327 G1 box; other site 596154004328 GTP/Mg2+ binding site [chemical binding]; other site 596154004329 Switch I region; other site 596154004330 G2 box; other site 596154004331 G3 box; other site 596154004332 Switch II region; other site 596154004333 G4 box; other site 596154004334 G5 box; other site 596154004335 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 596154004336 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 596154004337 HflK protein; Region: hflK; TIGR01933 596154004338 HflC protein; Region: hflC; TIGR01932 596154004339 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 596154004340 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 596154004341 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 596154004342 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 596154004343 dimer interface [polypeptide binding]; other site 596154004344 motif 1; other site 596154004345 active site 596154004346 motif 2; other site 596154004347 motif 3; other site 596154004348 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 596154004349 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154004350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154004351 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154004352 active site 596154004353 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 596154004354 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 596154004355 active site 596154004356 uracil binding [chemical binding]; other site 596154004357 Uncharacterized conserved protein [Function unknown]; Region: COG3391 596154004358 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 596154004359 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 596154004360 NodB motif; other site 596154004361 active site 596154004362 catalytic site [active] 596154004363 metal binding site [ion binding]; metal-binding site 596154004364 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 596154004365 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 596154004366 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 596154004367 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 596154004368 putative MPT binding site; other site 596154004369 glutamine synthetase; Provisional; Region: glnA; PRK09469 596154004370 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 596154004371 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 596154004372 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 596154004373 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 596154004374 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 596154004375 dimer interface [polypeptide binding]; other site 596154004376 phosphorylation site [posttranslational modification] 596154004377 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 596154004378 ATP binding site [chemical binding]; other site 596154004379 Mg2+ binding site [ion binding]; other site 596154004380 G-X-G motif; other site 596154004381 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 596154004382 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 596154004383 active site 596154004384 phosphorylation site [posttranslational modification] 596154004385 intermolecular recognition site; other site 596154004386 dimerization interface [polypeptide binding]; other site 596154004387 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 596154004388 Walker A motif; other site 596154004389 ATP binding site [chemical binding]; other site 596154004390 Walker B motif; other site 596154004391 arginine finger; other site 596154004392 Helix-turn-helix domains; Region: HTH; cl00088 596154004393 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 596154004394 putative phosphate binding site [ion binding]; other site 596154004395 putative catalytic site [active] 596154004396 active site 596154004397 metal binding site A [ion binding]; metal-binding site 596154004398 DNA binding site [nucleotide binding] 596154004399 putative AP binding site [nucleotide binding]; other site 596154004400 putative metal binding site B [ion binding]; other site 596154004401 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 596154004402 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 596154004403 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154004404 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154004405 K+-transporting ATPase, c chain; Region: KdpC; cl00944 596154004406 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 596154004407 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 596154004408 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 596154004409 Ligand Binding Site [chemical binding]; other site 596154004410 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 596154004411 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 596154004412 dimer interface [polypeptide binding]; other site 596154004413 phosphorylation site [posttranslational modification] 596154004414 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 596154004415 ATP binding site [chemical binding]; other site 596154004416 Mg2+ binding site [ion binding]; other site 596154004417 G-X-G motif; other site 596154004418 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 596154004419 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 596154004420 active site 596154004421 phosphorylation site [posttranslational modification] 596154004422 intermolecular recognition site; other site 596154004423 dimerization interface [polypeptide binding]; other site 596154004424 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 596154004425 DNA binding site [nucleotide binding] 596154004426 Transposase domain (DUF772); Region: DUF772; cl15789 596154004427 Transposase domain (DUF772); Region: DUF772; cl15789 596154004428 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 596154004429 Domain of unknown function (DUF802); Region: DUF802; pfam05650 596154004430 hypothetical protein; Provisional; Region: PRK09040 596154004431 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154004432 ligand binding site [chemical binding]; other site 596154004433 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 596154004434 folate binding site [chemical binding]; other site 596154004435 NADP+ binding site [chemical binding]; other site 596154004436 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 596154004437 dimerization interface [polypeptide binding]; other site 596154004438 active site 596154004439 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 596154004440 FAD binding domain; Region: FAD_binding_4; pfam01565 596154004441 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 596154004442 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 596154004443 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 596154004444 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 596154004445 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154004446 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154004447 dimer interface [polypeptide binding]; other site 596154004448 putative CheW interface [polypeptide binding]; other site 596154004449 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 596154004450 catalytic residues [active] 596154004451 substrate binding pocket [chemical binding]; other site 596154004452 substrate-Mg2+ binding site; other site 596154004453 aspartate-rich region 1; other site 596154004454 aspartate-rich region 2; other site 596154004455 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 596154004456 active site lid residues [active] 596154004457 substrate binding pocket [chemical binding]; other site 596154004458 catalytic residues [active] 596154004459 substrate-Mg2+ binding site; other site 596154004460 aspartate-rich region 1; other site 596154004461 aspartate-rich region 2; other site 596154004462 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154004463 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 596154004464 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 596154004465 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 596154004466 trigger factor; Provisional; Region: tig; PRK01490 596154004467 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 596154004468 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 596154004469 Clp protease; Region: CLP_protease; pfam00574 596154004470 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 596154004471 oligomer interface [polypeptide binding]; other site 596154004472 active site residues [active] 596154004473 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 596154004474 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 596154004475 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 596154004476 Walker A motif; other site 596154004477 ATP binding site [chemical binding]; other site 596154004478 Walker B motif; other site 596154004479 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 596154004480 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 596154004481 Found in ATP-dependent protease La (LON); Region: LON; smart00464 596154004482 Found in ATP-dependent protease La (LON); Region: LON; smart00464 596154004483 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 596154004484 Walker A motif; other site 596154004485 ATP binding site [chemical binding]; other site 596154004486 Walker B motif; other site 596154004487 arginine finger; other site 596154004488 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 596154004489 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154004490 Helix-turn-helix domains; Region: HTH; cl00088 596154004491 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 596154004492 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 596154004493 putative active site [active] 596154004494 putative catalytic site [active] 596154004495 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154004496 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154004497 active site 596154004498 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154004499 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004500 putative CoA-transferase; Provisional; Region: PRK11430 596154004501 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004503 NMT1-like family; Region: NMT1_2; cl15260 596154004504 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 596154004505 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 596154004506 putative FMN binding site [chemical binding]; other site 596154004507 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 596154004508 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 596154004509 substrate binding site [chemical binding]; other site 596154004510 oxyanion hole (OAH) forming residues; other site 596154004511 trimer interface [polypeptide binding]; other site 596154004512 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154004513 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_3; cd06336 596154004514 putative ligand binding site [chemical binding]; other site 596154004515 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 596154004516 TM-ABC transporter signature motif; other site 596154004517 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 596154004518 TM-ABC transporter signature motif; other site 596154004519 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154004520 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 596154004521 Walker A/P-loop; other site 596154004522 ATP binding site [chemical binding]; other site 596154004523 Q-loop/lid; other site 596154004524 ABC transporter signature motif; other site 596154004525 Walker B; other site 596154004526 D-loop; other site 596154004527 H-loop/switch region; other site 596154004528 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154004529 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 596154004530 Walker A/P-loop; other site 596154004531 ATP binding site [chemical binding]; other site 596154004532 Q-loop/lid; other site 596154004533 ABC transporter signature motif; other site 596154004534 Walker B; other site 596154004535 D-loop; other site 596154004536 H-loop/switch region; other site 596154004537 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 596154004538 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 596154004539 phosphate binding site [ion binding]; other site 596154004540 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154004541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154004542 NAD(P) binding site [chemical binding]; other site 596154004543 active site 596154004544 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154004545 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 596154004546 Helix-turn-helix domains; Region: HTH; cl00088 596154004547 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 596154004548 dimerization interface [polypeptide binding]; other site 596154004549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004550 NMT1-like family; Region: NMT1_2; cl15260 596154004551 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154004552 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004553 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154004554 active site 1 [active] 596154004555 active site 2 [active] 596154004556 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154004557 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004558 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154004559 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004561 NMT1-like family; Region: NMT1_2; cl15260 596154004562 lipid-transfer protein; Provisional; Region: PRK08256 596154004563 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154004564 active site 596154004565 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 596154004566 MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: MaoC_like; cd03446 596154004567 homodimer interaction site [polypeptide binding]; other site 596154004568 putative active site [active] 596154004569 putative catalytic site [active] 596154004570 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154004571 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154004572 active site 596154004573 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154004574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154004575 NAD(P) binding site [chemical binding]; other site 596154004576 active site 596154004577 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 596154004578 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 596154004579 substrate binding site [chemical binding]; other site 596154004580 oxyanion hole (OAH) forming residues; other site 596154004581 trimer interface [polypeptide binding]; other site 596154004582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004583 NMT1-like family; Region: NMT1_2; cl15260 596154004584 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154004585 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154004587 Helix-turn-helix domains; Region: HTH; cl00088 596154004588 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 596154004589 dimerization interface [polypeptide binding]; other site 596154004590 choline dehydrogenase; Validated; Region: PRK02106 596154004591 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 596154004592 NMT1-like family; Region: NMT1_2; cl15260 596154004593 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 596154004594 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154004595 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154004596 Helix-turn-helix domains; Region: HTH; cl00088 596154004597 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154004598 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154004599 Helix-turn-helix domains; Region: HTH; cl00088 596154004600 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154004601 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 596154004602 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154004603 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154004604 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154004605 active site 596154004606 enoyl-CoA hydratase; Region: PLN02864 596154004607 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154004608 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 596154004609 dimer interaction site [polypeptide binding]; other site 596154004610 substrate-binding tunnel; other site 596154004611 active site 596154004612 catalytic site [active] 596154004613 substrate binding site [chemical binding]; other site 596154004614 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154004615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154004616 NAD(P) binding site [chemical binding]; other site 596154004617 active site 596154004618 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 596154004619 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 596154004620 dimer interface [polypeptide binding]; other site 596154004621 active site 596154004622 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 596154004623 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 596154004624 AMP-binding enzyme; Region: AMP-binding; cl15778 596154004625 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154004626 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154004627 Helix-turn-helix domains; Region: HTH; cl00088 596154004628 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154004629 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154004630 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004631 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154004632 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154004633 Helix-turn-helix domains; Region: HTH; cl00088 596154004634 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 596154004635 putative dimerization interface [polypeptide binding]; other site 596154004636 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154004637 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154004638 active site 596154004639 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 596154004640 Ligand binding site [chemical binding]; other site 596154004641 Electron transfer flavoprotein domain; Region: ETF; pfam01012 596154004642 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 596154004643 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 596154004644 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 596154004645 Uncharacterized conserved protein [Function unknown]; Region: COG3777 596154004646 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154004647 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154004648 active site 2 [active] 596154004649 active site 1 [active] 596154004650 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154004651 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154004652 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 596154004653 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154004654 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 596154004655 Walker A/P-loop; other site 596154004656 ATP binding site [chemical binding]; other site 596154004657 Q-loop/lid; other site 596154004658 ABC transporter signature motif; other site 596154004659 Walker B; other site 596154004660 D-loop; other site 596154004661 H-loop/switch region; other site 596154004662 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154004663 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 596154004664 Walker A/P-loop; other site 596154004665 ATP binding site [chemical binding]; other site 596154004666 Q-loop/lid; other site 596154004667 ABC transporter signature motif; other site 596154004668 Walker B; other site 596154004669 D-loop; other site 596154004670 H-loop/switch region; other site 596154004671 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 596154004672 TM-ABC transporter signature motif; other site 596154004673 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 596154004674 TM-ABC transporter signature motif; other site 596154004675 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154004676 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 596154004677 ligand binding site [chemical binding]; other site 596154004678 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 596154004679 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 596154004680 putative NAD(P) binding site [chemical binding]; other site 596154004681 catalytic Zn binding site [ion binding]; other site 596154004682 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154004683 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 596154004684 NAD(P) binding site [chemical binding]; other site 596154004685 catalytic residues [active] 596154004686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004687 NMT1-like family; Region: NMT1_2; cl15260 596154004688 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154004689 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 596154004690 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154004691 NAD(P) binding site [chemical binding]; other site 596154004692 catalytic residues [active] 596154004693 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 596154004694 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154004695 NAD(P) binding site [chemical binding]; other site 596154004696 catalytic residues [active] 596154004697 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 596154004698 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 596154004699 substrate binding site [chemical binding]; other site 596154004700 oxyanion hole (OAH) forming residues; other site 596154004701 trimer interface [polypeptide binding]; other site 596154004702 Transmembrane secretion effector; Region: MFS_3; pfam05977 596154004703 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 596154004704 trimer interface [polypeptide binding]; other site 596154004705 eyelet of channel; other site 596154004706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154004707 NMT1-like family; Region: NMT1_2; cl15260 596154004708 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 596154004709 TM-ABC transporter signature motif; other site 596154004710 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 596154004711 TM-ABC transporter signature motif; other site 596154004712 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154004713 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 596154004714 Walker A/P-loop; other site 596154004715 ATP binding site [chemical binding]; other site 596154004716 Q-loop/lid; other site 596154004717 ABC transporter signature motif; other site 596154004718 Walker B; other site 596154004719 D-loop; other site 596154004720 H-loop/switch region; other site 596154004721 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154004722 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 596154004723 Walker A/P-loop; other site 596154004724 ATP binding site [chemical binding]; other site 596154004725 Q-loop/lid; other site 596154004726 ABC transporter signature motif; other site 596154004727 Walker B; other site 596154004728 D-loop; other site 596154004729 H-loop/switch region; other site 596154004730 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_3; cd06336 596154004731 putative ligand binding site [chemical binding]; other site 596154004732 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 596154004733 AMP-binding enzyme; Region: AMP-binding; cl15778 596154004734 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154004735 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154004736 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 596154004737 FAD binding site [chemical binding]; other site 596154004738 substrate binding site [chemical binding]; other site 596154004739 catalytic base [active] 596154004740 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 596154004741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154004742 NAD(P) binding site [chemical binding]; other site 596154004743 active site 596154004744 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154004745 Helix-turn-helix domains; Region: HTH; cl00088 596154004746 H-NS histone family; Region: Histone_HNS; pfam00816 596154004747 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 596154004748 Integrase core domain; Region: rve; cl01316 596154004749 Integrase core domain; Region: rve_3; cl15866 596154004750 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 596154004751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154004752 Helix-turn-helix domains; Region: HTH; cl00088 596154004753 Transposase domain (DUF772); Region: DUF772; cl15789 596154004754 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 596154004755 Transposase domain (DUF772); Region: DUF772; cl15789 596154004756 Transposase domain (DUF772); Region: DUF772; cl15789 596154004757 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 596154004758 Transposase domain (DUF772); Region: DUF772; cl15789 596154004759 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 596154004760 Helix-turn-helix domains; Region: HTH; cl00088 596154004761 Helix-turn-helix domains; Region: HTH; cl00088 596154004762 Integrase core domain; Region: rve; cl01316 596154004763 Integrase core domain; Region: rve_3; cl15866 596154004764 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 596154004765 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 596154004766 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 596154004767 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 596154004768 VirB7 interaction site; other site 596154004769 VirB8 protein; Region: VirB8; cl01500 596154004770 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 596154004771 conjugal transfer protein TrbL; Provisional; Region: PRK13875 596154004772 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 596154004773 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 596154004774 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 596154004775 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154004776 Walker A motif; other site 596154004777 ATP binding site [chemical binding]; other site 596154004778 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 596154004779 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 596154004780 TrbC/VIRB2 family; Region: TrbC; cl01583 596154004781 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 596154004782 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 596154004783 ATP binding site [chemical binding]; other site 596154004784 Walker A motif; other site 596154004785 hexamer interface [polypeptide binding]; other site 596154004786 Walker B motif; other site 596154004787 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 596154004788 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 596154004789 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 596154004790 Walker A motif; other site 596154004791 ATP binding site [chemical binding]; other site 596154004792 Walker B motif; other site 596154004793 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 596154004794 Helix-turn-helix domains; Region: HTH; cl00088 596154004795 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 596154004796 dimerization interface [polypeptide binding]; other site 596154004797 substrate binding pocket [chemical binding]; other site 596154004798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154004799 hypothetical protein; Provisional; Region: PRK07588 596154004800 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154004801 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154004802 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 596154004803 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 596154004804 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154004805 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 596154004806 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 596154004807 Walker A/P-loop; other site 596154004808 ATP binding site [chemical binding]; other site 596154004809 Q-loop/lid; other site 596154004810 ABC transporter signature motif; other site 596154004811 Walker B; other site 596154004812 D-loop; other site 596154004813 H-loop/switch region; other site 596154004814 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 596154004815 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 596154004816 Walker A/P-loop; other site 596154004817 ATP binding site [chemical binding]; other site 596154004818 Q-loop/lid; other site 596154004819 ABC transporter signature motif; other site 596154004820 Walker B; other site 596154004821 D-loop; other site 596154004822 H-loop/switch region; other site 596154004823 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 596154004824 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 596154004825 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154004826 Helix-turn-helix domains; Region: HTH; cl00088 596154004827 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 596154004828 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 596154004829 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 596154004830 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 596154004831 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 596154004832 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 596154004833 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 596154004834 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 596154004835 ParA-like protein; Provisional; Region: PHA02518 596154004836 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 596154004837 P-loop; other site 596154004838 Magnesium ion binding site [ion binding]; other site 596154004839 Replication initiator protein A; Region: RPA; cl02339 596154004840 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154004841 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 596154004842 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 596154004843 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 596154004844 Protein of unknown function (DUF736); Region: DUF736; cl02303 596154004845 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 596154004846 putative DNA binding site [nucleotide binding]; other site 596154004847 putative Zn2+ binding site [ion binding]; other site 596154004848 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_20; cd07254 596154004849 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154004850 putative metal binding site [ion binding]; other site 596154004851 Low molecular weight phosphatase family; Region: LMWPc; cd00115 596154004852 active site 596154004853 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 596154004854 Membrane transport protein; Region: Mem_trans; cl09117 596154004855 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 596154004856 ArsC family; Region: ArsC; pfam03960 596154004857 catalytic residues [active] 596154004858 Helix-turn-helix domains; Region: HTH; cl00088 596154004859 Chromate transporter; Region: Chromate_transp; pfam02417 596154004860 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 596154004861 Chromate transporter; Region: Chromate_transp; pfam02417 596154004862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 596154004863 Coenzyme A binding pocket [chemical binding]; other site 596154004864 ParB-like nuclease domain; Region: ParBc; cl02129 596154004865 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 596154004866 Domain of unknown function (DUF932); Region: DUF932; cl12129 596154004867 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 596154004868 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 596154004869 MPN+ (JAMM) motif; other site 596154004870 Zinc-binding site [ion binding]; other site 596154004871 TIR domain; Region: TIR_2; cl15770 596154004872 TIR domain; Region: TIR; cl02060 596154004873 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 596154004874 putative uracil binding site [chemical binding]; other site 596154004875 putative active site [active] 596154004876 TIR domain; Region: TIR_2; cl15770 596154004877 Predicted transcriptional regulator [Transcription]; Region: COG2944 596154004878 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 596154004879 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 596154004880 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 596154004881 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 596154004882 DNA binding site [nucleotide binding] 596154004883 Int/Topo IB signature motif; other site 596154004884 active site 596154004885 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 596154004886 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 596154004887 GIY-YIG motif/motif A; other site 596154004888 active site 596154004889 catalytic site [active] 596154004890 putative DNA binding site [nucleotide binding]; other site 596154004891 metal binding site [ion binding]; metal-binding site 596154004892 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 596154004893 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 596154004894 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 596154004895 IHF dimer interface [polypeptide binding]; other site 596154004896 IHF - DNA interface [nucleotide binding]; other site 596154004897 SurA N-terminal domain; Region: SurA_N_3; cl07813 596154004898 periplasmic folding chaperone; Provisional; Region: PRK10788 596154004899 PPIC-type PPIASE domain; Region: Rotamase; cl08278 596154004900 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154004901 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 596154004902 putative ligand binding site [chemical binding]; other site 596154004903 enoyl-CoA hydratase; Provisional; Region: PRK06688 596154004904 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 596154004905 substrate binding site [chemical binding]; other site 596154004906 oxyanion hole (OAH) forming residues; other site 596154004907 trimer interface [polypeptide binding]; other site 596154004908 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 596154004909 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 596154004910 AMP-binding enzyme; Region: AMP-binding; cl15778 596154004911 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 596154004912 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154004913 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154004914 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 596154004915 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154004916 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154004917 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 596154004918 carboxyltransferase (CT) interaction site; other site 596154004919 biotinylation site [posttranslational modification]; other site 596154004920 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 596154004921 active site 596154004922 catalytic residues [active] 596154004923 metal binding site [ion binding]; metal-binding site 596154004924 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 596154004925 AMP-binding enzyme; Region: AMP-binding; cl15778 596154004926 AMP-binding enzyme; Region: AMP-binding; cl15778 596154004927 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154004928 enoyl-CoA hydratase; Provisional; Region: PRK05995 596154004929 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 596154004930 substrate binding site [chemical binding]; other site 596154004931 oxyanion hole (OAH) forming residues; other site 596154004932 trimer interface [polypeptide binding]; other site 596154004933 cysteine synthase B; Region: cysM; TIGR01138 596154004934 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 596154004935 dimer interface [polypeptide binding]; other site 596154004936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154004937 catalytic residue [active] 596154004938 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 596154004939 putative NADH binding site [chemical binding]; other site 596154004940 putative active site [active] 596154004941 nudix motif; other site 596154004942 putative metal binding site [ion binding]; other site 596154004943 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 596154004944 CPxP motif; other site 596154004945 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 596154004946 active site 596154004947 tetramer interface; other site 596154004948 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 596154004949 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 596154004950 HIGH motif; other site 596154004951 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 596154004952 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 596154004953 active site 596154004954 KMSKS motif; other site 596154004955 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 596154004956 tRNA binding surface [nucleotide binding]; other site 596154004957 anticodon binding site; other site 596154004958 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 596154004959 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154004960 Cytochrome c; Region: Cytochrom_C; cl11414 596154004961 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 596154004962 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 596154004963 D-pathway; other site 596154004964 Low-spin heme binding site [chemical binding]; other site 596154004965 Putative water exit pathway; other site 596154004966 Binuclear center (active site) [active] 596154004967 K-pathway; other site 596154004968 Putative proton exit pathway; other site 596154004969 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 596154004970 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 596154004971 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 596154004972 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 596154004973 active site 596154004974 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 596154004975 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 596154004976 domain interfaces; other site 596154004977 active site 596154004978 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 596154004979 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 596154004980 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 596154004981 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 596154004982 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 596154004983 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 596154004984 heme binding site [chemical binding]; other site 596154004985 ferroxidase pore; other site 596154004986 ferroxidase diiron center [ion binding]; other site 596154004987 peroxiredoxin; Region: AhpC; TIGR03137 596154004988 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 596154004989 dimer interface [polypeptide binding]; other site 596154004990 decamer (pentamer of dimers) interface [polypeptide binding]; other site 596154004991 catalytic triad [active] 596154004992 peroxidatic and resolving cysteines [active] 596154004993 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 596154004994 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 596154004995 catalytic residue [active] 596154004996 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 596154004997 catalytic residues [active] 596154004998 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154004999 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 596154005000 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 596154005001 tetramer interface [polypeptide binding]; other site 596154005002 heme binding pocket [chemical binding]; other site 596154005003 NADPH binding site [chemical binding]; other site 596154005004 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154005005 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 596154005006 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 596154005007 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 596154005008 phosphoenolpyruvate synthase; Validated; Region: PRK06464 596154005009 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 596154005010 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 596154005011 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 596154005012 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 596154005013 Sodium:solute symporter family; Region: SSF; cl00456 596154005014 Sodium:solute symporter family; Region: SSF; cl00456 596154005015 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 596154005016 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154005017 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154005018 active site 596154005019 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 596154005020 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 596154005021 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 596154005022 SurA N-terminal domain; Region: SurA_N_3; cl07813 596154005023 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154005024 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 596154005025 putative ligand binding site [chemical binding]; other site 596154005026 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154005027 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154005028 active site 596154005029 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154005030 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 596154005031 AMP-binding enzyme; Region: AMP-binding; cl15778 596154005032 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 596154005033 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 596154005034 dimer interface [polypeptide binding]; other site 596154005035 active site 596154005036 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 596154005037 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 596154005038 substrate binding site [chemical binding]; other site 596154005039 oxyanion hole (OAH) forming residues; other site 596154005040 trimer interface [polypeptide binding]; other site 596154005041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005042 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 596154005043 NAD(P) binding site [chemical binding]; other site 596154005044 active site 596154005045 elongation factor P; Validated; Region: PRK00529 596154005046 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 596154005047 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 596154005048 RNA binding site [nucleotide binding]; other site 596154005049 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 596154005050 RNA binding site [nucleotide binding]; other site 596154005051 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 596154005052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154005053 Helix-turn-helix domains; Region: HTH; cl00088 596154005054 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 596154005055 putative dimerization interface [polypeptide binding]; other site 596154005056 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154005057 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154005058 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 596154005059 active site 596154005060 catalytic residues [active] 596154005061 metal binding site [ion binding]; metal-binding site 596154005062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005063 NMT1-like family; Region: NMT1_2; cl15260 596154005064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005065 NMT1-like family; Region: NMT1_2; cl15260 596154005066 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154005067 Helix-turn-helix domains; Region: HTH; cl00088 596154005068 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 596154005069 putative substrate binding pocket [chemical binding]; other site 596154005070 dimerization interface [polypeptide binding]; other site 596154005071 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154005072 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154005073 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154005074 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154005075 active site 596154005076 NMT1-like family; Region: NMT1_2; cl15260 596154005077 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 596154005078 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 596154005079 dimer interface [polypeptide binding]; other site 596154005080 conserved gate region; other site 596154005081 putative PBP binding loops; other site 596154005082 ABC-ATPase subunit interface; other site 596154005083 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 596154005084 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 596154005085 Walker A/P-loop; other site 596154005086 ATP binding site [chemical binding]; other site 596154005087 Q-loop/lid; other site 596154005088 ABC transporter signature motif; other site 596154005089 Walker B; other site 596154005090 D-loop; other site 596154005091 H-loop/switch region; other site 596154005092 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 596154005093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154005094 DNA-binding site [nucleotide binding]; DNA binding site 596154005095 UTRA domain; Region: UTRA; cl01230 596154005096 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 596154005097 active sites [active] 596154005098 tetramer interface [polypeptide binding]; other site 596154005099 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 596154005100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154005101 DNA-binding site [nucleotide binding]; DNA binding site 596154005102 UTRA domain; Region: UTRA; cl01230 596154005103 Sodium:solute symporter family; Region: SSF; cl00456 596154005104 urocanate hydratase; Provisional; Region: PRK05414 596154005105 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154005106 Helix-turn-helix domains; Region: HTH; cl00088 596154005107 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154005108 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 596154005109 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 596154005110 substrate binding pocket [chemical binding]; other site 596154005111 membrane-bound complex binding site; other site 596154005112 hinge residues; other site 596154005113 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 596154005114 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 596154005115 putative PBP binding loops; other site 596154005116 dimer interface [polypeptide binding]; other site 596154005117 ABC-ATPase subunit interface; other site 596154005118 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 596154005119 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 596154005120 Walker A/P-loop; other site 596154005121 ATP binding site [chemical binding]; other site 596154005122 Q-loop/lid; other site 596154005123 ABC transporter signature motif; other site 596154005124 Walker B; other site 596154005125 D-loop; other site 596154005126 H-loop/switch region; other site 596154005127 HutD; Region: HutD; cl01532 596154005128 imidazolonepropionase; Validated; Region: PRK09356 596154005129 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 596154005130 active site 596154005131 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 596154005132 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 596154005133 active site 596154005134 N-formylglutamate amidohydrolase; Region: FGase; cl01522 596154005135 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 596154005136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005137 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 596154005138 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 596154005139 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154005140 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 596154005141 tetramerization interface [polypeptide binding]; other site 596154005142 NAD(P) binding site [chemical binding]; other site 596154005143 catalytic residues [active] 596154005144 SAF domain; Region: SAF; cl00555 596154005145 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 596154005146 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 596154005147 NMT1-like family; Region: NMT1_2; cl15260 596154005148 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 596154005149 Helix-turn-helix domains; Region: HTH; cl00088 596154005150 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 596154005151 dimerization interface [polypeptide binding]; other site 596154005152 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 596154005153 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 596154005154 active site 596154005155 nucleophile elbow; other site 596154005156 tartrate dehydrogenase; Provisional; Region: PRK08194 596154005157 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 596154005158 transcriptional activator TtdR; Provisional; Region: PRK09801 596154005159 Helix-turn-helix domains; Region: HTH; cl00088 596154005160 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 596154005161 putative effector binding pocket; other site 596154005162 putative dimerization interface [polypeptide binding]; other site 596154005163 tellurium resistance terB-like protein; Region: terB_like; cd07177 596154005164 metal binding site [ion binding]; metal-binding site 596154005165 Domain of unknown function (DUF697); Region: DUF697; cl12064 596154005166 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 596154005167 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 596154005168 IHF - DNA interface [nucleotide binding]; other site 596154005169 IHF dimer interface [polypeptide binding]; other site 596154005170 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 596154005171 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 596154005172 non-specific DNA binding site [nucleotide binding]; other site 596154005173 salt bridge; other site 596154005174 sequence-specific DNA binding site [nucleotide binding]; other site 596154005175 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 596154005176 Helix-turn-helix domains; Region: HTH; cl00088 596154005177 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 596154005178 dimerization interface [polypeptide binding]; other site 596154005179 substrate binding pocket [chemical binding]; other site 596154005180 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 596154005181 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 596154005182 NAD(P) binding site [chemical binding]; other site 596154005183 homotetramer interface [polypeptide binding]; other site 596154005184 homodimer interface [polypeptide binding]; other site 596154005185 active site 596154005186 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 596154005187 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 596154005188 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 596154005189 division inhibitor protein; Provisional; Region: slmA; PRK09480 596154005190 Helix-turn-helix domains; Region: HTH; cl00088 596154005191 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 596154005192 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 596154005193 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 596154005194 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 596154005195 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 596154005196 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 596154005197 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 596154005198 Walker A/P-loop; other site 596154005199 ATP binding site [chemical binding]; other site 596154005200 Q-loop/lid; other site 596154005201 ABC transporter signature motif; other site 596154005202 Walker B; other site 596154005203 D-loop; other site 596154005204 H-loop/switch region; other site 596154005205 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 596154005206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005207 Walker A/P-loop; other site 596154005208 ATP binding site [chemical binding]; other site 596154005209 Q-loop/lid; other site 596154005210 ABC transporter signature motif; other site 596154005211 Walker B; other site 596154005212 D-loop; other site 596154005213 H-loop/switch region; other site 596154005214 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 596154005215 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154005216 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154005217 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154005218 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 596154005219 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 596154005220 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154005221 Beta-Casp domain; Region: Beta-Casp; cl12567 596154005222 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 596154005223 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 596154005224 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 596154005225 Cytochrome C'; Region: Cytochrom_C_2; cl01610 596154005226 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 596154005227 Helix-turn-helix domains; Region: HTH; cl00088 596154005228 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 596154005229 dimerization interface [polypeptide binding]; other site 596154005230 substrate binding pocket [chemical binding]; other site 596154005231 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154005232 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 596154005233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005234 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 596154005235 Magnesium ion binding site [ion binding]; other site 596154005236 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 596154005237 ParB-like nuclease domain; Region: ParBc; cl02129 596154005238 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 596154005239 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 596154005240 homodimer interface [polypeptide binding]; other site 596154005241 putative active site [active] 596154005242 catalytic site [active] 596154005243 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 596154005244 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 596154005245 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 596154005246 dimer interface [polypeptide binding]; other site 596154005247 ssDNA binding site [nucleotide binding]; other site 596154005248 tetramer (dimer of dimers) interface [polypeptide binding]; other site 596154005249 DNA topoisomerase III; Provisional; Region: PRK07726 596154005250 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 596154005251 active site 596154005252 putative interdomain interaction site [polypeptide binding]; other site 596154005253 putative metal-binding site [ion binding]; other site 596154005254 putative nucleotide binding site [chemical binding]; other site 596154005255 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 596154005256 domain I; other site 596154005257 DNA binding groove [nucleotide binding] 596154005258 phosphate binding site [ion binding]; other site 596154005259 domain II; other site 596154005260 domain III; other site 596154005261 nucleotide binding site [chemical binding]; other site 596154005262 catalytic site [active] 596154005263 domain IV; other site 596154005264 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 596154005265 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 596154005266 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 596154005267 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 596154005268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005269 DEAD-like helicases superfamily; Region: DEXDc; smart00487 596154005270 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 596154005271 nucleotide binding region [chemical binding]; other site 596154005272 ATP-binding site [chemical binding]; other site 596154005273 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 596154005274 Chromate transporter; Region: Chromate_transp; pfam02417 596154005275 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 596154005276 Chromate transporter; Region: Chromate_transp; pfam02417 596154005277 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 596154005278 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 596154005279 putative transposase OrfB; Reviewed; Region: PHA02517 596154005280 HTH-like domain; Region: HTH_21; pfam13276 596154005281 Integrase core domain; Region: rve; cl01316 596154005282 Integrase core domain; Region: rve_3; cl15866 596154005283 Helix-turn-helix domains; Region: HTH; cl00088 596154005284 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 596154005285 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 596154005286 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 596154005287 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 596154005288 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 596154005289 active site 596154005290 phosphorylation site [posttranslational modification] 596154005291 intermolecular recognition site; other site 596154005292 dimerization interface [polypeptide binding]; other site 596154005293 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 596154005294 DNA binding site [nucleotide binding] 596154005295 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 596154005296 dimerization interface [polypeptide binding]; other site 596154005297 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 596154005298 dimer interface [polypeptide binding]; other site 596154005299 phosphorylation site [posttranslational modification] 596154005300 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 596154005301 ATP binding site [chemical binding]; other site 596154005302 Mg2+ binding site [ion binding]; other site 596154005303 G-X-G motif; other site 596154005304 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 596154005305 NHL repeat; Region: NHL; pfam01436 596154005306 NHL repeat; Region: NHL; pfam01436 596154005307 NHL repeat; Region: NHL; pfam01436 596154005308 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 596154005309 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 596154005310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005311 Walker A/P-loop; other site 596154005312 ATP binding site [chemical binding]; other site 596154005313 Q-loop/lid; other site 596154005314 ABC transporter signature motif; other site 596154005315 Walker B; other site 596154005316 D-loop; other site 596154005317 H-loop/switch region; other site 596154005318 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 596154005319 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 596154005320 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 596154005321 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 596154005322 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 596154005323 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 596154005324 Domain of unknown function DUF87; Region: DUF87; pfam01935 596154005325 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 596154005326 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 596154005327 AAA domain; Region: AAA_13; pfam13166 596154005328 AAA domain; Region: AAA_13; pfam13166 596154005329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005330 Q-loop/lid; other site 596154005331 ABC transporter signature motif; other site 596154005332 Walker B; other site 596154005333 D-loop; other site 596154005334 H-loop/switch region; other site 596154005335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 596154005337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005338 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 596154005339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005341 AIPR protein; Region: AIPR; pfam10592 596154005342 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 596154005343 active site 596154005344 catalytic triad [active] 596154005345 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 596154005346 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 596154005347 Walker A motif; other site 596154005348 ATP binding site [chemical binding]; other site 596154005349 Walker B motif; other site 596154005350 arginine finger; other site 596154005351 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 596154005352 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 596154005353 ATP binding site [chemical binding]; other site 596154005354 putative Mg++ binding site [ion binding]; other site 596154005355 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 596154005356 nucleotide binding region [chemical binding]; other site 596154005357 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 596154005358 ATP-binding site [chemical binding]; other site 596154005359 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154005360 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 596154005361 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 596154005362 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 596154005363 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 596154005364 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 596154005365 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 596154005366 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 596154005367 Protein of unknown function (DUF904); Region: DUF904; cl11531 596154005368 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 596154005369 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 596154005370 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154005371 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 596154005372 catalytic residues [active] 596154005373 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 596154005374 MPN+ (JAMM) motif; other site 596154005375 Zinc-binding site [ion binding]; other site 596154005376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005377 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 596154005378 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 596154005379 TraU protein; Region: TraU; cl06067 596154005380 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 596154005381 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 596154005382 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 596154005383 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 596154005384 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 596154005385 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 596154005386 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 596154005387 Putative helicase; Region: TraI_2; pfam07514 596154005388 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 596154005389 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 596154005390 non-specific DNA binding site [nucleotide binding]; other site 596154005391 salt bridge; other site 596154005392 sequence-specific DNA binding site [nucleotide binding]; other site 596154005393 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 596154005394 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 596154005395 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 596154005396 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 596154005397 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154005398 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 596154005399 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154005400 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154005401 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 596154005402 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 596154005403 DNA binding residues [nucleotide binding] 596154005404 dimer interface [polypeptide binding]; other site 596154005405 putative metal binding site [ion binding]; other site 596154005406 integrase; Provisional; Region: PRK09692 596154005407 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 596154005408 active site 596154005409 Int/Topo IB signature motif; other site 596154005410 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 596154005411 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 596154005412 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 596154005413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 596154005414 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005415 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 596154005416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 596154005417 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 596154005418 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 596154005419 Helix-turn-helix domains; Region: HTH; cl00088 596154005420 HTH-like domain; Region: HTH_21; pfam13276 596154005421 Integrase core domain; Region: rve; cl01316 596154005422 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154005423 Helix-turn-helix domains; Region: HTH; cl00088 596154005424 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154005425 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154005426 active site 596154005427 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154005428 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154005429 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154005430 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 596154005431 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154005432 active site 596154005433 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 596154005434 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154005435 active site 596154005436 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 596154005437 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154005438 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 596154005439 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154005440 active site 596154005441 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154005442 Helix-turn-helix domains; Region: HTH; cl00088 596154005443 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154005444 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154005445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005446 NAD(P) binding site [chemical binding]; other site 596154005447 active site 596154005448 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 596154005449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005450 CoA-ligase; Region: Ligase_CoA; cl02894 596154005451 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154005452 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 596154005453 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 596154005454 substrate binding site [chemical binding]; other site 596154005455 oxyanion hole (OAH) forming residues; other site 596154005456 trimer interface [polypeptide binding]; other site 596154005457 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 596154005458 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 596154005459 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154005460 active site 596154005461 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154005462 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 596154005463 active site 596154005464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005465 NMT1-like family; Region: NMT1_2; cl15260 596154005466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005467 NMT1-like family; Region: NMT1_2; cl15260 596154005468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005469 NMT1-like family; Region: NMT1_2; cl15260 596154005470 enoyl-CoA hydratase; Region: PLN02864 596154005471 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154005472 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 596154005473 dimer interaction site [polypeptide binding]; other site 596154005474 substrate-binding tunnel; other site 596154005475 active site 596154005476 catalytic site [active] 596154005477 substrate binding site [chemical binding]; other site 596154005478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005479 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 596154005480 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 596154005481 Ligand binding site [chemical binding]; other site 596154005482 Electron transfer flavoprotein domain; Region: ETF; pfam01012 596154005483 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 596154005484 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 596154005485 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 596154005486 enoyl-CoA hydratase; Provisional; Region: PRK06688 596154005487 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 596154005488 substrate binding site [chemical binding]; other site 596154005489 oxyanion hole (OAH) forming residues; other site 596154005490 trimer interface [polypeptide binding]; other site 596154005491 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 596154005492 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 596154005493 FMN binding site [chemical binding]; other site 596154005494 substrate binding site [chemical binding]; other site 596154005495 putative catalytic residue [active] 596154005496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005497 NMT1-like family; Region: NMT1_2; cl15260 596154005498 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154005499 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 596154005500 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154005501 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154005502 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 596154005503 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 596154005504 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154005505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005506 NMT1-like family; Region: NMT1_2; cl15260 596154005507 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154005508 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154005509 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154005510 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154005511 active site 596154005512 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154005513 active site 2 [active] 596154005514 active site 1 [active] 596154005515 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154005516 active site 2 [active] 596154005517 active site 1 [active] 596154005518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154005519 NMT1-like family; Region: NMT1_2; cl15260 596154005520 enoyl-CoA hydratase; Provisional; Region: PRK08252 596154005521 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 596154005522 substrate binding site [chemical binding]; other site 596154005523 oxyanion hole (OAH) forming residues; other site 596154005524 trimer interface [polypeptide binding]; other site 596154005525 enoyl-CoA hydratase; Provisional; Region: PRK09245 596154005526 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 596154005527 substrate binding site [chemical binding]; other site 596154005528 oxyanion hole (OAH) forming residues; other site 596154005529 trimer interface [polypeptide binding]; other site 596154005530 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154005531 Helix-turn-helix domains; Region: HTH; cl00088 596154005532 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154005533 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154005534 Helix-turn-helix domains; Region: HTH; cl00088 596154005535 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154005536 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 596154005537 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154005538 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154005539 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154005540 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 596154005541 carboxyltransferase (CT) interaction site; other site 596154005542 biotinylation site [posttranslational modification]; other site 596154005543 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 596154005544 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154005545 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154005546 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 596154005547 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 596154005548 CoenzymeA binding site [chemical binding]; other site 596154005549 subunit interaction site [polypeptide binding]; other site 596154005550 PHB binding site; other site 596154005551 transposase/IS protein; Provisional; Region: PRK09183 596154005552 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 596154005553 Walker A motif; other site 596154005554 ATP binding site [chemical binding]; other site 596154005555 Walker B motif; other site 596154005556 arginine finger; other site 596154005557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154005558 Helix-turn-helix domains; Region: HTH; cl00088 596154005559 Integrase core domain; Region: rve; cl01316 596154005560 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 596154005561 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 596154005562 dimer interface [polypeptide binding]; other site 596154005563 ssDNA binding site [nucleotide binding]; other site 596154005564 tetramer (dimer of dimers) interface [polypeptide binding]; other site 596154005565 DNA topoisomerase III; Provisional; Region: PRK07726 596154005566 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 596154005567 active site 596154005568 putative interdomain interaction site [polypeptide binding]; other site 596154005569 putative metal-binding site [ion binding]; other site 596154005570 putative nucleotide binding site [chemical binding]; other site 596154005571 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 596154005572 domain I; other site 596154005573 DNA binding groove [nucleotide binding] 596154005574 phosphate binding site [ion binding]; other site 596154005575 domain II; other site 596154005576 domain III; other site 596154005577 nucleotide binding site [chemical binding]; other site 596154005578 catalytic site [active] 596154005579 domain IV; other site 596154005580 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 596154005581 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 596154005582 ArsC family; Region: ArsC; pfam03960 596154005583 catalytic residues [active] 596154005584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 596154005585 Coenzyme A binding pocket [chemical binding]; other site 596154005586 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 596154005587 Membrane transport protein; Region: Mem_trans; cl09117 596154005588 Low molecular weight phosphatase family; Region: LMWPc; cl00105 596154005589 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 596154005590 active site 596154005591 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_20; cd07254 596154005592 putative metal binding site [ion binding]; other site 596154005593 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 596154005594 putative DNA binding site [nucleotide binding]; other site 596154005595 putative Zn2+ binding site [ion binding]; other site 596154005596 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 596154005597 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 596154005598 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 596154005599 Active Sites [active] 596154005600 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 596154005601 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 596154005602 isoleucine-tRNA ligase, putative; Provisional; Region: PTZ00427 596154005603 Domain of unknown function (DUF932); Region: DUF932; cl12129 596154005604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005605 DEAD-like helicases superfamily; Region: DEXDc; smart00487 596154005606 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 596154005607 nucleotide binding region [chemical binding]; other site 596154005608 ATP-binding site [chemical binding]; other site 596154005609 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 596154005610 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 596154005611 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 596154005612 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 596154005613 Domain of unknown function DUF87; Region: DUF87; pfam01935 596154005614 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 596154005615 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 596154005616 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 596154005617 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 596154005618 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 596154005619 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 596154005620 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 596154005621 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 596154005622 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 596154005623 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 596154005624 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 596154005625 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 596154005626 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 596154005627 catalytic residues [active] 596154005628 division inhibitor protein; Provisional; Region: slmA; PRK09480 596154005629 Helix-turn-helix domains; Region: HTH; cl00088 596154005630 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154005631 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 596154005632 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 596154005633 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 596154005634 FtsX-like permease family; Region: FtsX; cl15850 596154005635 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 596154005636 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 596154005637 Walker A/P-loop; other site 596154005638 ATP binding site [chemical binding]; other site 596154005639 Q-loop/lid; other site 596154005640 ABC transporter signature motif; other site 596154005641 Walker B; other site 596154005642 D-loop; other site 596154005643 H-loop/switch region; other site 596154005644 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154005645 Integrase core domain; Region: rve; cl01316 596154005646 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 596154005647 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005648 TniQ; Region: TniQ; pfam06527 596154005649 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; cl09741 596154005650 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154005651 active site 596154005652 ATP binding site [chemical binding]; other site 596154005653 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 596154005654 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 596154005655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005656 Walker A/P-loop; other site 596154005657 ATP binding site [chemical binding]; other site 596154005658 Q-loop/lid; other site 596154005659 ABC transporter signature motif; other site 596154005660 Walker B; other site 596154005661 D-loop; other site 596154005662 H-loop/switch region; other site 596154005663 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 596154005664 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 596154005665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154005666 Walker A/P-loop; other site 596154005667 ATP binding site [chemical binding]; other site 596154005668 Q-loop/lid; other site 596154005669 ABC transporter signature motif; other site 596154005670 Walker B; other site 596154005671 D-loop; other site 596154005672 H-loop/switch region; other site 596154005673 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 596154005674 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 596154005675 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 596154005676 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 596154005677 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 596154005678 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 596154005679 active site residue [active] 596154005680 Chromate transporter; Region: Chromate_transp; pfam02417 596154005681 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 596154005682 Chromate transporter; Region: Chromate_transp; pfam02417 596154005683 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 596154005684 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 596154005685 Presynaptic Site I dimer interface [polypeptide binding]; other site 596154005686 catalytic residues [active] 596154005687 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 596154005688 Synaptic Flat tetramer interface [polypeptide binding]; other site 596154005689 Synaptic Site I dimer interface [polypeptide binding]; other site 596154005690 DNA binding site [nucleotide binding] 596154005691 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 596154005692 DNA-binding interface [nucleotide binding]; DNA binding site 596154005693 RNase II stability modulator; Provisional; Region: PRK10060 596154005694 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 596154005695 MerE protein; Region: MerE; cl04911 596154005696 transcriptional regulator MerD; Provisional; Region: PRK13749 596154005697 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 596154005698 DNA binding residues [nucleotide binding] 596154005699 putative dimer interface [polypeptide binding]; other site 596154005700 putative mercuric reductase; Provisional; Region: PRK13748 596154005701 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 596154005702 metal-binding site [ion binding] 596154005703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154005704 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 596154005705 MerC mercury resistance protein; Region: MerC; cl03934 596154005706 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 596154005707 metal-binding site [ion binding] 596154005708 MerT mercuric transport protein; Region: MerT; cl03578 596154005709 putative transcriptional regulator MerR; Provisional; Region: PRK13752 596154005710 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 596154005711 DNA binding residues [nucleotide binding] 596154005712 dimer interface [polypeptide binding]; other site 596154005713 mercury binding site [ion binding]; other site 596154005714 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 596154005715 TraU protein; Region: TraU; cl06067 596154005716 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 596154005717 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 596154005718 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 596154005719 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 596154005720 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 596154005721 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 596154005722 Putative helicase; Region: TraI_2; pfam07514 596154005723 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 596154005724 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 596154005725 non-specific DNA binding site [nucleotide binding]; other site 596154005726 salt bridge; other site 596154005727 sequence-specific DNA binding site [nucleotide binding]; other site 596154005728 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 596154005729 dimerization interface [polypeptide binding]; other site 596154005730 integrase; Provisional; Region: PRK09692 596154005731 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 596154005732 active site 596154005733 Int/Topo IB signature motif; other site 596154005734 Helix-turn-helix domains; Region: HTH; cl00088 596154005735 Rrf2 family protein; Region: rrf2_super; TIGR00738 596154005736 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 596154005737 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 596154005738 HPP family; Region: HPP; pfam04982 596154005739 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 596154005740 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 596154005741 rRNA binding site [nucleotide binding]; other site 596154005742 predicted 30S ribosome binding site; other site 596154005743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154005744 metal binding site [ion binding]; metal-binding site 596154005745 active site 596154005746 I-site; other site 596154005747 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 596154005748 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 596154005749 IHF dimer interface [polypeptide binding]; other site 596154005750 IHF - DNA interface [nucleotide binding]; other site 596154005751 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 596154005752 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 596154005753 RNA binding site [nucleotide binding]; other site 596154005754 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 596154005755 RNA binding site [nucleotide binding]; other site 596154005756 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 596154005757 RNA binding site [nucleotide binding]; other site 596154005758 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 596154005759 RNA binding site [nucleotide binding]; other site 596154005760 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 596154005761 RNA binding site [nucleotide binding]; other site 596154005762 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 596154005763 RNA binding site [nucleotide binding]; other site 596154005764 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 596154005765 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 596154005766 hinge; other site 596154005767 active site 596154005768 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 596154005769 CMP-binding site; other site 596154005770 The sites determining sugar specificity; other site 596154005771 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 596154005772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005773 Chorismate mutase type II; Region: CM_2; cl00693 596154005774 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 596154005775 Prephenate dehydratase; Region: PDT; pfam00800 596154005776 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 596154005777 putative L-Phe binding site [chemical binding]; other site 596154005778 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 596154005779 homodimer interface [polypeptide binding]; other site 596154005780 substrate-cofactor binding pocket; other site 596154005781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154005782 catalytic residue [active] 596154005783 DNA gyrase subunit A; Validated; Region: PRK05560 596154005784 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 596154005785 CAP-like domain; other site 596154005786 active site 596154005787 primary dimer interface [polypeptide binding]; other site 596154005788 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 596154005789 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 596154005790 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 596154005791 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 596154005792 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 596154005793 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 596154005794 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154005795 ligand binding site [chemical binding]; other site 596154005796 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 596154005797 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 596154005798 S-adenosylmethionine binding site [chemical binding]; other site 596154005799 phosphoglycolate phosphatase; Provisional; Region: PRK13222 596154005800 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 596154005801 motif II; other site 596154005802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154005803 Helix-turn-helix domains; Region: HTH; cl00088 596154005804 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 596154005805 dimerization interface [polypeptide binding]; other site 596154005806 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 596154005807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005808 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 596154005809 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 596154005810 dimer interface [polypeptide binding]; other site 596154005811 conserved gate region; other site 596154005812 putative PBP binding loops; other site 596154005813 ABC-ATPase subunit interface; other site 596154005814 NMT1-like family; Region: NMT1_2; cl15260 596154005815 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 596154005816 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 596154005817 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 596154005818 Walker A/P-loop; other site 596154005819 ATP binding site [chemical binding]; other site 596154005820 Q-loop/lid; other site 596154005821 ABC transporter signature motif; other site 596154005822 Walker B; other site 596154005823 D-loop; other site 596154005824 H-loop/switch region; other site 596154005825 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 596154005826 putative metal binding site [ion binding]; other site 596154005827 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 596154005828 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 596154005829 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 596154005830 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 596154005831 catalytic residues [active] 596154005832 catalytic nucleophile [active] 596154005833 Presynaptic Site I dimer interface [polypeptide binding]; other site 596154005834 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 596154005835 Synaptic Flat tetramer interface [polypeptide binding]; other site 596154005836 Synaptic Site I dimer interface [polypeptide binding]; other site 596154005837 DNA binding site [nucleotide binding] 596154005838 Recombinase; Region: Recombinase; pfam07508 596154005839 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 596154005840 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 596154005841 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 596154005842 non-specific DNA binding site [nucleotide binding]; other site 596154005843 salt bridge; other site 596154005844 sequence-specific DNA binding site [nucleotide binding]; other site 596154005845 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154005846 AAA domain; Region: AAA_24; pfam13479 596154005847 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 596154005848 P63C domain; Region: P63C; pfam10546 596154005849 hypothetical protein; Validated; Region: PRK07078 596154005850 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 596154005851 active site 596154005852 metal binding site [ion binding]; metal-binding site 596154005853 interdomain interaction site; other site 596154005854 D5 N terminal like; Region: D5_N; cl07360 596154005855 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 596154005856 ParB-like nuclease domain; Region: ParBc; cl02129 596154005857 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 596154005858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005859 ParB-like nuclease domain; Region: ParBc; cl02129 596154005860 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 596154005861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005862 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 596154005863 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 596154005864 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 596154005865 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 596154005866 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 596154005867 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 596154005868 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 596154005869 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 596154005870 tandem repeat interface [polypeptide binding]; other site 596154005871 oligomer interface [polypeptide binding]; other site 596154005872 active site residues [active] 596154005873 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 596154005874 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 596154005875 Phage-related minor tail protein [Function unknown]; Region: COG5281 596154005876 tape measure domain; Region: tape_meas_nterm; TIGR02675 596154005877 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 596154005878 catalytic residue [active] 596154005879 Protein of unknown function (DUF511); Region: DUF511; cl01114 596154005880 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 596154005881 active site 596154005882 NTP binding site [chemical binding]; other site 596154005883 metal binding triad [ion binding]; metal-binding site 596154005884 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 596154005885 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 596154005886 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 596154005887 ATP binding site [chemical binding]; other site 596154005888 putative Mg++ binding site [ion binding]; other site 596154005889 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 596154005890 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 596154005891 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 596154005892 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 596154005893 HsdM N-terminal domain; Region: HsdM_N; pfam12161 596154005894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005895 Protein of unknown function DUF262; Region: DUF262; cl14890 596154005896 Protein of unknown function DUF262; Region: DUF262; cl14890 596154005897 WYL domain; Region: WYL; cl14852 596154005898 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 596154005899 catalytic residues [active] 596154005900 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 596154005901 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 596154005902 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 596154005903 protein binding site [polypeptide binding]; other site 596154005904 Peptidase family M48; Region: Peptidase_M48; cl12018 596154005905 Phosphate-starvation-inducible E; Region: PsiE; cl01264 596154005906 thioredoxin 2; Provisional; Region: PRK10996 596154005907 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 596154005908 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 596154005909 catalytic residues [active] 596154005910 FtsH Extracellular; Region: FtsH_ext; pfam06480 596154005911 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 596154005912 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 596154005913 Walker A motif; other site 596154005914 ATP binding site [chemical binding]; other site 596154005915 Walker B motif; other site 596154005916 arginine finger; other site 596154005917 Peptidase family M41; Region: Peptidase_M41; pfam01434 596154005918 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 596154005919 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 596154005920 putative active site [active] 596154005921 catalytic site [active] 596154005922 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 596154005923 putative active site [active] 596154005924 catalytic site [active] 596154005925 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 596154005926 Clp amino terminal domain; Region: Clp_N; pfam02861 596154005927 Clp amino terminal domain; Region: Clp_N; pfam02861 596154005928 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 596154005929 Walker A motif; other site 596154005930 ATP binding site [chemical binding]; other site 596154005931 Walker B motif; other site 596154005932 arginine finger; other site 596154005933 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 596154005934 Walker A motif; other site 596154005935 ATP binding site [chemical binding]; other site 596154005936 Walker B motif; other site 596154005937 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 596154005938 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 596154005939 putative dimer interface [polypeptide binding]; other site 596154005940 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154005941 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 596154005942 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 596154005943 Catalytic site [active] 596154005944 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 596154005945 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 596154005946 active site 596154005947 DNA binding site [nucleotide binding] 596154005948 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 596154005949 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 596154005950 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 596154005951 catalytic residues [active] 596154005952 catalytic nucleophile [active] 596154005953 Presynaptic Site I dimer interface [polypeptide binding]; other site 596154005954 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 596154005955 Synaptic Flat tetramer interface [polypeptide binding]; other site 596154005956 Synaptic Site I dimer interface [polypeptide binding]; other site 596154005957 DNA binding site [nucleotide binding] 596154005958 Recombinase; Region: Recombinase; pfam07508 596154005959 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 596154005960 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 596154005961 non-specific DNA binding site [nucleotide binding]; other site 596154005962 salt bridge; other site 596154005963 sequence-specific DNA binding site [nucleotide binding]; other site 596154005964 Helix-turn-helix domains; Region: HTH; cl00088 596154005965 putative transposase OrfB; Reviewed; Region: PHA02517 596154005966 HTH-like domain; Region: HTH_21; pfam13276 596154005967 Integrase core domain; Region: rve; cl01316 596154005968 Integrase core domain; Region: rve_3; cl15866 596154005969 Glutaminase; Region: Glutaminase; cl00907 596154005970 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 596154005971 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 596154005972 metal binding site [ion binding]; metal-binding site 596154005973 putative dimer interface [polypeptide binding]; other site 596154005974 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 596154005975 metabolite-proton symporter; Region: 2A0106; TIGR00883 596154005976 putative substrate translocation pore; other site 596154005977 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154005978 Helix-turn-helix domains; Region: HTH; cl00088 596154005979 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 596154005980 dimerization interface [polypeptide binding]; other site 596154005981 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154005982 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 596154005983 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 596154005984 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 596154005985 putative substrate translocation pore; other site 596154005986 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 596154005987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154005988 NAD(P) binding site [chemical binding]; other site 596154005989 active site 596154005990 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 596154005991 CoenzymeA binding site [chemical binding]; other site 596154005992 subunit interaction site [polypeptide binding]; other site 596154005993 PHB binding site; other site 596154005994 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 596154005995 Prostaglandin dehydrogenases; Region: PGDH; cd05288 596154005996 NAD(P) binding site [chemical binding]; other site 596154005997 substrate binding site [chemical binding]; other site 596154005998 dimer interface [polypeptide binding]; other site 596154005999 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 596154006000 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154006001 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 596154006002 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 596154006003 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 596154006004 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 596154006005 putative substrate translocation pore; other site 596154006006 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 596154006007 DNA photolyase; Region: DNA_photolyase; pfam00875 596154006008 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 596154006009 Copper resistance protein D; Region: CopD; cl00563 596154006010 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 596154006011 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 596154006012 THF binding site; other site 596154006013 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 596154006014 substrate binding site [chemical binding]; other site 596154006015 THF binding site; other site 596154006016 zinc-binding site [ion binding]; other site 596154006017 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 596154006018 Helix-turn-helix domains; Region: HTH; cl00088 596154006019 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 596154006020 putative dimerization interface [polypeptide binding]; other site 596154006021 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 596154006022 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 596154006023 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 596154006024 tetramer interface [polypeptide binding]; other site 596154006025 active site 596154006026 Mg2+/Mn2+ binding site [ion binding]; other site 596154006027 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 596154006028 PrpF protein; Region: PrpF; pfam04303 596154006029 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 596154006030 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 596154006031 substrate binding site [chemical binding]; other site 596154006032 ligand binding site [chemical binding]; other site 596154006033 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 596154006034 substrate binding site [chemical binding]; other site 596154006035 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 596154006036 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 596154006037 dimer interface [polypeptide binding]; other site 596154006038 active site 596154006039 citrylCoA binding site [chemical binding]; other site 596154006040 oxalacetate/citrate binding site [chemical binding]; other site 596154006041 coenzyme A binding site [chemical binding]; other site 596154006042 catalytic triad [active] 596154006043 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 596154006044 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 596154006045 sequence-specific DNA binding site [nucleotide binding]; other site 596154006046 salt bridge; other site 596154006047 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 596154006048 Domain of unknown function (DUF955); Region: DUF955; cl01076 596154006049 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 596154006050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154006051 Helix-turn-helix domains; Region: HTH; cl00088 596154006052 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 596154006053 putative dimerization interface [polypeptide binding]; other site 596154006054 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 596154006055 dimer interface [polypeptide binding]; other site 596154006056 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154006057 metal binding site [ion binding]; metal-binding site 596154006058 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 596154006059 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 596154006060 RNA binding surface [nucleotide binding]; other site 596154006061 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 596154006062 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 596154006063 dimer interface [polypeptide binding]; other site 596154006064 phosphorylation site [posttranslational modification] 596154006065 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 596154006066 ATP binding site [chemical binding]; other site 596154006067 Mg2+ binding site [ion binding]; other site 596154006068 G-X-G motif; other site 596154006069 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 596154006070 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 596154006071 active site 596154006072 phosphorylation site [posttranslational modification] 596154006073 intermolecular recognition site; other site 596154006074 dimerization interface [polypeptide binding]; other site 596154006075 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 596154006076 DNA binding site [nucleotide binding] 596154006077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154006078 NMT1-like family; Region: NMT1_2; cl15260 596154006079 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 596154006080 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 596154006081 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 596154006082 Family of unknown function (DUF500); Region: DUF500; cl01109 596154006083 putative inner membrane protein; Provisional; Region: PRK11099 596154006084 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 596154006085 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 596154006086 active site residue [active] 596154006087 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 596154006088 active site residue [active] 596154006089 ferrochelatase; Reviewed; Region: hemH; PRK00035 596154006090 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 596154006091 C-terminal domain interface [polypeptide binding]; other site 596154006092 active site 596154006093 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 596154006094 active site 596154006095 N-terminal domain interface [polypeptide binding]; other site 596154006096 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 596154006097 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 596154006098 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 596154006099 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154006100 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 596154006101 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154006102 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 596154006103 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 596154006104 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154006105 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 596154006106 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 596154006107 homodimer interface [polypeptide binding]; other site 596154006108 substrate-cofactor binding pocket; other site 596154006109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154006110 catalytic residue [active] 596154006111 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 596154006112 FOG: CBS domain [General function prediction only]; Region: COG0517 596154006113 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 596154006114 Tetramer interface [polypeptide binding]; other site 596154006115 active site 596154006116 FMN-binding site [chemical binding]; other site 596154006117 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 596154006118 ATP cone domain; Region: ATP-cone; pfam03477 596154006119 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 596154006120 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 596154006121 dimer interface [polypeptide binding]; other site 596154006122 glycine-pyridoxal phosphate binding site [chemical binding]; other site 596154006123 active site 596154006124 folate binding site [chemical binding]; other site 596154006125 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 596154006126 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 596154006127 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154006128 catalytic residue [active] 596154006129 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 596154006130 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 596154006131 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 596154006132 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 596154006133 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 596154006134 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 596154006135 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 596154006136 ribonuclease R; Region: RNase_R; TIGR02063 596154006137 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 596154006138 RNB domain; Region: RNB; pfam00773 596154006139 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 596154006140 RNA binding site [nucleotide binding]; other site 596154006141 classical (c) SDRs; Region: SDR_c; cd05233 596154006142 NAD(P) binding site [chemical binding]; other site 596154006143 active site 596154006144 Cytochrome c; Region: Cytochrom_C; cl11414 596154006145 Cytochrome c; Region: Cytochrom_C; cl11414 596154006146 Cytochrome c; Region: Cytochrom_C; cl11414 596154006147 Cytochrome c; Region: Cytochrom_C; cl11414 596154006148 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 596154006149 catalytic residues [active] 596154006150 ribosome maturation protein RimP; Reviewed; Region: PRK00092 596154006151 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 596154006152 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 596154006153 Sm1 motif; other site 596154006154 D3 - B interaction site; other site 596154006155 D1 - D2 interaction site; other site 596154006156 Hfq - Hfq interaction site; other site 596154006157 RNA binding pocket [nucleotide binding]; other site 596154006158 Sm2 motif; other site 596154006159 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 596154006160 NusA N-terminal domain; Region: NusA_N; pfam08529 596154006161 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 596154006162 RNA binding site [nucleotide binding]; other site 596154006163 homodimer interface [polypeptide binding]; other site 596154006164 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 596154006165 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 596154006166 G-X-X-G motif; other site 596154006167 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 596154006168 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 596154006169 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 596154006170 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 596154006171 translation initiation factor IF-2; Region: IF-2; TIGR00487 596154006172 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 596154006173 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 596154006174 G1 box; other site 596154006175 putative GEF interaction site [polypeptide binding]; other site 596154006176 GTP/Mg2+ binding site [chemical binding]; other site 596154006177 Switch I region; other site 596154006178 G2 box; other site 596154006179 G3 box; other site 596154006180 Switch II region; other site 596154006181 G4 box; other site 596154006182 G5 box; other site 596154006183 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 596154006184 Translation-initiation factor 2; Region: IF-2; pfam11987 596154006185 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 596154006186 Ribosome-binding factor A; Region: RBFA; cl00542 596154006187 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 596154006188 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 596154006189 RNA binding site [nucleotide binding]; other site 596154006190 active site 596154006191 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 596154006192 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 596154006193 G1 box; other site 596154006194 putative GEF interaction site [polypeptide binding]; other site 596154006195 GTP/Mg2+ binding site [chemical binding]; other site 596154006196 Switch I region; other site 596154006197 G2 box; other site 596154006198 G3 box; other site 596154006199 Switch II region; other site 596154006200 G4 box; other site 596154006201 G5 box; other site 596154006202 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 596154006203 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 596154006204 Leucine carboxyl methyltransferase; Region: LCM; cl01306 596154006205 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 596154006206 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 596154006207 substrate binding site [chemical binding]; other site 596154006208 oxyanion hole (OAH) forming residues; other site 596154006209 trimer interface [polypeptide binding]; other site 596154006210 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 596154006211 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 596154006212 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 596154006213 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 596154006214 DNA binding residues [nucleotide binding] 596154006215 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 596154006216 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 596154006217 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 596154006218 SmpB-tmRNA interface; other site 596154006219 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 596154006220 putative coenzyme Q binding site [chemical binding]; other site 596154006221 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 596154006222 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 596154006223 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 596154006224 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 596154006225 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 596154006226 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 596154006227 active site 596154006228 GMP synthase; Reviewed; Region: guaA; PRK00074 596154006229 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 596154006230 AMP/PPi binding site [chemical binding]; other site 596154006231 candidate oxyanion hole; other site 596154006232 catalytic triad [active] 596154006233 potential glutamine specificity residues [chemical binding]; other site 596154006234 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 596154006235 ATP Binding subdomain [chemical binding]; other site 596154006236 Ligand Binding sites [chemical binding]; other site 596154006237 Dimerization subdomain; other site 596154006238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154006239 Helix-turn-helix domains; Region: HTH; cl00088 596154006240 Integrase core domain; Region: rve; cl01316 596154006241 transposase/IS protein; Provisional; Region: PRK09183 596154006242 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 596154006243 Walker A motif; other site 596154006244 ATP binding site [chemical binding]; other site 596154006245 Walker B motif; other site 596154006246 arginine finger; other site 596154006247 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 596154006248 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 596154006249 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 596154006250 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 596154006251 Int/Topo IB signature motif; other site 596154006252 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 596154006253 Domain of unknown function (DUF932); Region: DUF932; cl12129 596154006254 ParB-like nuclease domain; Region: ParBc; cl02129 596154006255 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 596154006256 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 596154006257 metal-binding site [ion binding] 596154006258 MerT mercuric transport protein; Region: MerT; cl03578 596154006259 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 596154006260 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 596154006261 DNA binding residues [nucleotide binding] 596154006262 dimer interface [polypeptide binding]; other site 596154006263 mercury binding site [ion binding]; other site 596154006264 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 596154006265 EamA-like transporter family; Region: EamA; cl01037 596154006266 Protein of unknown function (DUF736); Region: DUF736; cl02303 596154006267 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 596154006268 non-specific DNA binding site [nucleotide binding]; other site 596154006269 salt bridge; other site 596154006270 sequence-specific DNA binding site [nucleotide binding]; other site 596154006271 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 596154006272 Helix-turn-helix domains; Region: HTH; cl00088 596154006273 putative transposase OrfB; Reviewed; Region: PHA02517 596154006274 HTH-like domain; Region: HTH_21; pfam13276 596154006275 Integrase core domain; Region: rve; cl01316 596154006276 Integrase core domain; Region: rve_3; cl15866 596154006277 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 596154006278 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154006279 Replication initiator protein A; Region: RPA; cl02339 596154006280 ParA-like protein; Provisional; Region: PHA02518 596154006281 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 596154006282 P-loop; other site 596154006283 Magnesium ion binding site [ion binding]; other site 596154006284 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 596154006285 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 596154006286 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 596154006287 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 596154006288 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 596154006289 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 596154006290 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006291 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006292 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 596154006293 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 596154006294 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 596154006295 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 596154006296 dimer interface [polypeptide binding]; other site 596154006297 phosphorylation site [posttranslational modification] 596154006298 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 596154006299 ATP binding site [chemical binding]; other site 596154006300 Mg2+ binding site [ion binding]; other site 596154006301 G-X-G motif; other site 596154006302 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 596154006303 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 596154006304 active site 596154006305 phosphorylation site [posttranslational modification] 596154006306 intermolecular recognition site; other site 596154006307 dimerization interface [polypeptide binding]; other site 596154006308 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 596154006309 DNA binding site [nucleotide binding] 596154006310 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 596154006311 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006312 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006313 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006314 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 596154006315 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006316 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 596154006317 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 596154006318 Phospholipid methyltransferase; Region: PEMT; cl00763 596154006319 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 596154006320 metal-binding site [ion binding] 596154006321 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 596154006322 Cytochrome c; Region: Cytochrom_C; cl11414 596154006323 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154006324 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154006325 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 596154006326 motif II; other site 596154006327 Outer membrane efflux protein; Region: OEP; pfam02321 596154006328 Outer membrane efflux protein; Region: OEP; pfam02321 596154006329 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 596154006330 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 596154006331 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 596154006332 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 596154006333 transposase/IS protein; Provisional; Region: PRK09183 596154006334 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 596154006335 Walker A motif; other site 596154006336 ATP binding site [chemical binding]; other site 596154006337 Walker B motif; other site 596154006338 arginine finger; other site 596154006339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154006340 Helix-turn-helix domains; Region: HTH; cl00088 596154006341 Integrase core domain; Region: rve; cl01316 596154006342 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 596154006343 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 596154006344 dimer interface [polypeptide binding]; other site 596154006345 Citrate synthase; Region: Citrate_synt; pfam00285 596154006346 active site 596154006347 citrylCoA binding site [chemical binding]; other site 596154006348 NADH binding [chemical binding]; other site 596154006349 cationic pore residues; other site 596154006350 oxalacetate/citrate binding site [chemical binding]; other site 596154006351 coenzyme A binding site [chemical binding]; other site 596154006352 catalytic triad [active] 596154006353 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 596154006354 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 596154006355 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 596154006356 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 596154006357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006358 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 596154006359 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 596154006360 SdhC subunit interface [polypeptide binding]; other site 596154006361 proximal heme binding site [chemical binding]; other site 596154006362 cardiolipin binding site; other site 596154006363 Iron-sulfur protein interface; other site 596154006364 proximal quinone binding site [chemical binding]; other site 596154006365 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 596154006366 Iron-sulfur protein interface; other site 596154006367 proximal quinone binding site [chemical binding]; other site 596154006368 SdhD (CybS) interface [polypeptide binding]; other site 596154006369 proximal heme binding site [chemical binding]; other site 596154006370 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 596154006371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154006372 DNA-binding site [nucleotide binding]; DNA binding site 596154006373 UTRA domain; Region: UTRA; cl01230 596154006374 malate dehydrogenase; Provisional; Region: PRK05442 596154006375 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 596154006376 NAD(P) binding site [chemical binding]; other site 596154006377 dimer interface [polypeptide binding]; other site 596154006378 malate binding site [chemical binding]; other site 596154006379 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 596154006380 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 596154006381 S-adenosylmethionine binding site [chemical binding]; other site 596154006382 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 596154006383 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 596154006384 substrate binding site [chemical binding]; other site 596154006385 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 596154006386 substrate binding site [chemical binding]; other site 596154006387 ligand binding site [chemical binding]; other site 596154006388 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 596154006389 Helix-turn-helix domains; Region: HTH; cl00088 596154006390 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 596154006391 dimerization interface [polypeptide binding]; other site 596154006392 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154006393 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154006394 active site 596154006395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154006396 NMT1-like family; Region: NMT1_2; cl15260 596154006397 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154006398 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154006399 glutathione reductase; Validated; Region: PRK06116 596154006400 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154006401 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 596154006402 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 596154006403 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 596154006404 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 596154006405 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 596154006406 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 596154006407 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 596154006408 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 596154006409 MoxR-like ATPases [General function prediction only]; Region: COG0714 596154006410 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 596154006411 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 596154006412 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 596154006413 putative hydrophobic ligand binding site [chemical binding]; other site 596154006414 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 596154006415 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 596154006416 XdhC Rossmann domain; Region: XdhC_C; pfam13478 596154006417 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 596154006418 metal-binding site 596154006419 bZIP transcription factor; Region: bZIP_1; cl02576 596154006420 hypothetical protein; Provisional; Region: PRK07233 596154006421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006422 Predicted integral membrane protein [Function unknown]; Region: COG0392 596154006423 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 596154006424 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 596154006425 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 596154006426 Ligand binding site; other site 596154006427 Putative Catalytic site; other site 596154006428 DXD motif; other site 596154006429 putative protease; Provisional; Region: PRK15452 596154006430 Peptidase family U32; Region: Peptidase_U32; cl03113 596154006431 Helix-turn-helix domains; Region: HTH; cl00088 596154006432 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 596154006433 dimerization interface [polypeptide binding]; other site 596154006434 Transposase domain (DUF772); Region: DUF772; cl15789 596154006435 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 596154006436 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 596154006437 active site 596154006438 phosphorylation site [posttranslational modification] 596154006439 intermolecular recognition site; other site 596154006440 dimerization interface [polypeptide binding]; other site 596154006441 Helix-turn-helix domains; Region: HTH; cl00088 596154006442 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 596154006443 dimer interface [polypeptide binding]; other site 596154006444 phosphorylation site [posttranslational modification] 596154006445 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 596154006446 ATP binding site [chemical binding]; other site 596154006447 Mg2+ binding site [ion binding]; other site 596154006448 G-X-G motif; other site 596154006449 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 596154006450 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 596154006451 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 596154006452 Subunit I/III interface [polypeptide binding]; other site 596154006453 Subunit III/IV interface [polypeptide binding]; other site 596154006454 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 596154006455 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 596154006456 D-pathway; other site 596154006457 Putative ubiquinol binding site [chemical binding]; other site 596154006458 Low-spin heme (heme b) binding site [chemical binding]; other site 596154006459 Putative water exit pathway; other site 596154006460 Binuclear center (heme o3/CuB) [ion binding]; other site 596154006461 K-pathway; other site 596154006462 Putative proton exit pathway; other site 596154006463 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 596154006464 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006465 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 596154006466 metabolite-proton symporter; Region: 2A0106; TIGR00883 596154006467 Gram-negative bacterial tonB protein; Region: TonB; cl10048 596154006468 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 596154006469 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 596154006470 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 596154006471 active site 596154006472 aminotransferase; Validated; Region: PRK07337 596154006473 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 596154006474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154006475 homodimer interface [polypeptide binding]; other site 596154006476 catalytic residue [active] 596154006477 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 596154006478 putative RNA binding site [nucleotide binding]; other site 596154006479 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 596154006480 homopentamer interface [polypeptide binding]; other site 596154006481 active site 596154006482 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 596154006483 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 596154006484 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 596154006485 dimerization interface [polypeptide binding]; other site 596154006486 active site 596154006487 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 596154006488 catalytic loop [active] 596154006489 iron binding site [ion binding]; other site 596154006490 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 596154006491 homodimer interface [polypeptide binding]; other site 596154006492 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 596154006493 NAD binding site [chemical binding]; other site 596154006494 active site 596154006495 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 596154006496 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 596154006497 hypothetical membrane protein, TIGR01666; Region: YCCS 596154006498 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 596154006499 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 596154006500 homotrimer interaction site [polypeptide binding]; other site 596154006501 putative active site [active] 596154006502 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 596154006503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006504 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 596154006505 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 596154006506 FAD dependent oxidoreductase; Region: DAO; pfam01266 596154006507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154006508 NMT1-like family; Region: NMT1_2; cl15260 596154006509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154006510 Helix-turn-helix domains; Region: HTH; cl00088 596154006511 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 596154006512 dimerization interface [polypeptide binding]; other site 596154006513 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 596154006514 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 596154006515 GTP/Mg2+ binding site [chemical binding]; other site 596154006516 G4 box; other site 596154006517 G5 box; other site 596154006518 G1 box; other site 596154006519 Switch I region; other site 596154006520 G2 box; other site 596154006521 G3 box; other site 596154006522 Switch II region; other site 596154006523 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 596154006524 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 596154006525 active site 596154006526 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 596154006527 enterobactin exporter EntS; Provisional; Region: PRK10489 596154006528 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 596154006529 putative substrate translocation pore; other site 596154006530 Staphylococcal nuclease homologues; Region: SNc; smart00318 596154006531 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 596154006532 Catalytic site; other site 596154006533 Predicted permeases [General function prediction only]; Region: RarD; COG2962 596154006534 EamA-like transporter family; Region: EamA; cl01037 596154006535 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 596154006536 pseudouridine synthase; Region: TIGR00093 596154006537 active site 596154006538 Peptidase family M23; Region: Peptidase_M23; pfam01551 596154006539 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 596154006540 Aspartase; Region: Aspartase; cd01357 596154006541 active sites [active] 596154006542 tetramer interface [polypeptide binding]; other site 596154006543 META domain; Region: META; cl01245 596154006544 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 596154006545 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 596154006546 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 596154006547 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154006548 active site 596154006549 HIGH motif; other site 596154006550 nucleotide binding site [chemical binding]; other site 596154006551 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154006552 active site 596154006553 KMSKS motif; other site 596154006554 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 596154006555 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 596154006556 trimer interface [polypeptide binding]; other site 596154006557 active site 596154006558 dimer interface [polypeptide binding]; other site 596154006559 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154006560 RF-1 domain; Region: RF-1; cl02875 596154006561 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 596154006562 putative active site [active] 596154006563 metal binding site [ion binding]; metal-binding site 596154006564 Predicted esterase [General function prediction only]; Region: COG0400 596154006565 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 596154006566 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 596154006567 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154006568 Helix-turn-helix domains; Region: HTH; cl00088 596154006569 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 596154006570 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 596154006571 dimer interface [polypeptide binding]; other site 596154006572 TPP-binding site [chemical binding]; other site 596154006573 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 596154006574 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 596154006575 Amidase; Region: Amidase; cl11426 596154006576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154006577 NMT1-like family; Region: NMT1_2; cl15260 596154006578 Helix-turn-helix domains; Region: HTH; cl00088 596154006579 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 596154006580 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 596154006581 dimerization interface [polypeptide binding]; other site 596154006582 substrate binding pocket [chemical binding]; other site 596154006583 Transcriptional regulators [Transcription]; Region: FadR; COG2186 596154006584 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154006585 DNA-binding site [nucleotide binding]; DNA binding site 596154006586 FCD domain; Region: FCD; cl11656 596154006587 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 596154006588 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 596154006589 putative substrate translocation pore; other site 596154006590 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 596154006591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006592 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 596154006593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006594 NAD(P) binding site [chemical binding]; other site 596154006595 active site 596154006596 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 596154006597 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 596154006598 intersubunit interface [polypeptide binding]; other site 596154006599 active site 596154006600 Zn2+ binding site [ion binding]; other site 596154006601 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 596154006602 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 596154006603 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 596154006604 putative active site [active] 596154006605 putative metal binding site [ion binding]; other site 596154006606 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 596154006607 substrate binding site [chemical binding]; other site 596154006608 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 596154006609 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 596154006610 substrate binding site [chemical binding]; other site 596154006611 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 596154006612 TPR repeat; Region: TPR_11; pfam13414 596154006613 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 596154006614 binding surface 596154006615 TPR motif; other site 596154006616 TPR repeat; Region: TPR_11; pfam13414 596154006617 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 596154006618 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 596154006619 active site 596154006620 HIGH motif; other site 596154006621 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 596154006622 KMSKS motif; other site 596154006623 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 596154006624 tRNA binding surface [nucleotide binding]; other site 596154006625 anticodon binding site; other site 596154006626 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 596154006627 endonuclease III; Region: ENDO3c; smart00478 596154006628 minor groove reading motif; other site 596154006629 helix-hairpin-helix signature motif; other site 596154006630 substrate binding pocket [chemical binding]; other site 596154006631 active site 596154006632 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154006633 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 596154006634 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 596154006635 Ligand Binding Site [chemical binding]; other site 596154006636 aspartate kinase; Reviewed; Region: PRK06635 596154006637 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 596154006638 putative nucleotide binding site [chemical binding]; other site 596154006639 putative catalytic residues [active] 596154006640 putative Mg ion binding site [ion binding]; other site 596154006641 putative aspartate binding site [chemical binding]; other site 596154006642 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 596154006643 putative allosteric regulatory site; other site 596154006644 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 596154006645 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 596154006646 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 596154006647 putative ion selectivity filter; other site 596154006648 putative pore gating glutamate residue; other site 596154006649 putative H+/Cl- coupling transport residue; other site 596154006650 division inhibitor protein; Provisional; Region: slmA; PRK09480 596154006651 Helix-turn-helix domains; Region: HTH; cl00088 596154006652 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154006653 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 596154006654 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 596154006655 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 596154006656 FtsX-like permease family; Region: FtsX; cl15850 596154006657 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 596154006658 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 596154006659 Walker A/P-loop; other site 596154006660 ATP binding site [chemical binding]; other site 596154006661 Q-loop/lid; other site 596154006662 ABC transporter signature motif; other site 596154006663 Walker B; other site 596154006664 D-loop; other site 596154006665 H-loop/switch region; other site 596154006666 Transglycosylase SLT domain; Region: SLT_2; pfam13406 596154006667 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 596154006668 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 596154006669 exonuclease I; Provisional; Region: sbcB; PRK11779 596154006670 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 596154006671 active site 596154006672 substrate binding site [chemical binding]; other site 596154006673 catalytic site [active] 596154006674 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 596154006675 NAD-dependent deacetylase; Provisional; Region: PRK05333 596154006676 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 596154006677 NAD+ binding site [chemical binding]; other site 596154006678 substrate binding site [chemical binding]; other site 596154006679 Zn binding site [ion binding]; other site 596154006680 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 596154006681 GAF domain; Region: GAF; cl15785 596154006682 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 596154006683 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154006684 active site 596154006685 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 596154006686 tetramer interface [polypeptide binding]; other site 596154006687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154006688 catalytic residue [active] 596154006689 Transcriptional regulator; Region: Transcrip_reg; cl00361 596154006690 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 596154006691 4Fe-4S binding domain; Region: Fer4_5; pfam12801 596154006692 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 596154006693 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 596154006694 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 596154006695 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 596154006696 LrgB-like family; Region: LrgB; cl00596 596154006697 LrgA family; Region: LrgA; cl00608 596154006698 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 596154006699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154006700 DNA-binding site [nucleotide binding]; DNA binding site 596154006701 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 596154006702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154006703 homodimer interface [polypeptide binding]; other site 596154006704 catalytic residue [active] 596154006705 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 596154006706 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 596154006707 C-terminal domain interface [polypeptide binding]; other site 596154006708 GSH binding site (G-site) [chemical binding]; other site 596154006709 dimer interface [polypeptide binding]; other site 596154006710 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 596154006711 N-terminal domain interface [polypeptide binding]; other site 596154006712 putative dimer interface [polypeptide binding]; other site 596154006713 active site 596154006714 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 596154006715 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154006716 Transcriptional regulator; Region: Transcrip_reg; cl00361 596154006717 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 596154006718 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 596154006719 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154006720 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 596154006721 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 596154006722 Oligomerisation domain; Region: Oligomerisation; cl00519 596154006723 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 596154006724 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 596154006725 Maf-like protein; Region: Maf; pfam02545 596154006726 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 596154006727 active site 596154006728 dimer interface [polypeptide binding]; other site 596154006729 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 596154006730 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 596154006731 ligand binding site [chemical binding]; other site 596154006732 flexible hinge region; other site 596154006733 Helix-turn-helix domains; Region: HTH; cl00088 596154006734 Cytochrome c; Region: Cytochrom_C; cl11414 596154006735 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 596154006736 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 596154006737 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 596154006738 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 596154006739 FeS/SAM binding site; other site 596154006740 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 596154006741 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154006742 Helix-turn-helix domains; Region: HTH; cl00088 596154006743 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154006744 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154006745 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154006746 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 596154006747 Cytochrome c; Region: Cytochrom_C; cl11414 596154006748 Cytochrome c; Region: Cytochrom_C; cl11414 596154006749 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 596154006750 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 596154006751 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 596154006752 ribonuclease G; Provisional; Region: PRK11712 596154006753 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 596154006754 homodimer interface [polypeptide binding]; other site 596154006755 oligonucleotide binding site [chemical binding]; other site 596154006756 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 596154006757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154006758 metal binding site [ion binding]; metal-binding site 596154006759 active site 596154006760 I-site; other site 596154006761 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 596154006762 dimerization interface [polypeptide binding]; other site 596154006763 methionine aminotransferase; Validated; Region: PRK09082 596154006764 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 596154006765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154006766 homodimer interface [polypeptide binding]; other site 596154006767 catalytic residue [active] 596154006768 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 596154006769 Helix-turn-helix domains; Region: HTH; cl00088 596154006770 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 596154006771 substrate binding site [chemical binding]; other site 596154006772 dimerization interface [polypeptide binding]; other site 596154006773 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 596154006774 putative active site [active] 596154006775 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 596154006776 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 596154006777 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 596154006778 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 596154006779 multifunctional aminopeptidase A; Provisional; Region: PRK00913 596154006780 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 596154006781 interface (dimer of trimers) [polypeptide binding]; other site 596154006782 Substrate-binding/catalytic site; other site 596154006783 Zn-binding sites [ion binding]; other site 596154006784 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 596154006785 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 596154006786 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 596154006787 dimerization interface [polypeptide binding]; other site 596154006788 ligand binding site [chemical binding]; other site 596154006789 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 596154006790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006791 Biofilm formation and stress response factor; Region: BsmA; cl01794 596154006792 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 596154006793 Ligand Binding Site [chemical binding]; other site 596154006794 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 596154006795 octamerization interface [polypeptide binding]; other site 596154006796 diferric-oxygen binding site [ion binding]; other site 596154006797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154006798 NMT1-like family; Region: NMT1_2; cl15260 596154006799 beta-ketothiolase; Provisional; Region: PRK09051 596154006800 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 596154006801 dimer interface [polypeptide binding]; other site 596154006802 active site 596154006803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006804 short chain dehydrogenase; Provisional; Region: PRK07023 596154006805 NAD(P) binding site [chemical binding]; other site 596154006806 active site 596154006807 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 596154006808 active site 596154006809 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 596154006810 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 596154006811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 596154006812 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 596154006813 dimer interface [polypeptide binding]; other site 596154006814 phosphorylation site [posttranslational modification] 596154006815 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 596154006816 ATP binding site [chemical binding]; other site 596154006817 Mg2+ binding site [ion binding]; other site 596154006818 G-X-G motif; other site 596154006819 Response regulator receiver domain; Region: Response_reg; pfam00072 596154006820 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 596154006821 active site 596154006822 phosphorylation site [posttranslational modification] 596154006823 intermolecular recognition site; other site 596154006824 dimerization interface [polypeptide binding]; other site 596154006825 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 596154006826 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 596154006827 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 596154006828 active site 596154006829 phosphorylation site [posttranslational modification] 596154006830 intermolecular recognition site; other site 596154006831 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 596154006832 DNA binding residues [nucleotide binding] 596154006833 dimerization interface [polypeptide binding]; other site 596154006834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 596154006835 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 596154006836 ATP binding site [chemical binding]; other site 596154006837 Mg2+ binding site [ion binding]; other site 596154006838 G-X-G motif; other site 596154006839 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 596154006840 catalytic residues [active] 596154006841 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 596154006842 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 596154006843 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 596154006844 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 596154006845 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 596154006846 DNA binding residues [nucleotide binding] 596154006847 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 596154006848 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 596154006849 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 596154006850 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154006851 catalytic residue [active] 596154006852 Uncharacterized conserved protein [Function unknown]; Region: COG1739 596154006853 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 596154006854 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 596154006855 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154006856 hypothetical protein; Provisional; Region: PRK01254 596154006857 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 596154006858 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 596154006859 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 596154006860 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 596154006861 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 596154006862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154006863 homodimer interface [polypeptide binding]; other site 596154006864 catalytic residue [active] 596154006865 excinuclease ABC subunit B; Provisional; Region: PRK05298 596154006866 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 596154006867 ATP binding site [chemical binding]; other site 596154006868 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 596154006869 nucleotide binding region [chemical binding]; other site 596154006870 ATP-binding site [chemical binding]; other site 596154006871 Ultra-violet resistance protein B; Region: UvrB; pfam12344 596154006872 UvrB/uvrC motif; Region: UVR; pfam02151 596154006873 Helix-turn-helix domains; Region: HTH; cl00088 596154006874 Rrf2 family protein; Region: rrf2_super; TIGR00738 596154006875 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 596154006876 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 596154006877 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154006878 catalytic residue [active] 596154006879 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 596154006880 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 596154006881 trimerization site [polypeptide binding]; other site 596154006882 active site 596154006883 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 596154006884 co-chaperone HscB; Provisional; Region: hscB; PRK03578 596154006885 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 596154006886 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 596154006887 chaperone protein HscA; Provisional; Region: hscA; PRK05183 596154006888 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 596154006889 catalytic loop [active] 596154006890 iron binding site [ion binding]; other site 596154006891 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 596154006892 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 596154006893 active site 596154006894 substrate binding site [chemical binding]; other site 596154006895 catalytic site [active] 596154006896 Predicted dehydrogenase [General function prediction only]; Region: COG0579 596154006897 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 596154006898 quinone interaction residues [chemical binding]; other site 596154006899 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 596154006900 active site 596154006901 catalytic residues [active] 596154006902 FMN binding site [chemical binding]; other site 596154006903 substrate binding site [chemical binding]; other site 596154006904 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 596154006905 tetramer (dimer of dimers) interface [polypeptide binding]; other site 596154006906 active site 596154006907 dimer interface [polypeptide binding]; other site 596154006908 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 596154006909 catalytic residues [active] 596154006910 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 596154006911 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 596154006912 active site 596154006913 Zn binding site [ion binding]; other site 596154006914 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 596154006915 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 596154006916 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 596154006917 homodimer interface [polypeptide binding]; other site 596154006918 NADP binding site [chemical binding]; other site 596154006919 substrate binding site [chemical binding]; other site 596154006920 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 596154006921 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 596154006922 active site 596154006923 phosphorylation site [posttranslational modification] 596154006924 intermolecular recognition site; other site 596154006925 dimerization interface [polypeptide binding]; other site 596154006926 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 596154006927 DNA binding residues [nucleotide binding] 596154006928 dimerization interface [polypeptide binding]; other site 596154006929 PAS domain S-box; Region: sensory_box; TIGR00229 596154006930 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 596154006931 putative active site [active] 596154006932 heme pocket [chemical binding]; other site 596154006933 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 596154006934 dimer interface [polypeptide binding]; other site 596154006935 phosphorylation site [posttranslational modification] 596154006936 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 596154006937 ATP binding site [chemical binding]; other site 596154006938 Mg2+ binding site [ion binding]; other site 596154006939 G-X-G motif; other site 596154006940 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 596154006941 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 596154006942 dimer interface [polypeptide binding]; other site 596154006943 TPP-binding site [chemical binding]; other site 596154006944 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 596154006945 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 596154006946 E3 interaction surface; other site 596154006947 lipoyl attachment site [posttranslational modification]; other site 596154006948 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 596154006949 E3 interaction surface; other site 596154006950 lipoyl attachment site [posttranslational modification]; other site 596154006951 e3 binding domain; Region: E3_binding; pfam02817 596154006952 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 596154006953 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 596154006954 E3 interaction surface; other site 596154006955 lipoyl attachment site [posttranslational modification]; other site 596154006956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006957 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 596154006958 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154006959 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 596154006960 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 596154006961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154006962 NMT1-like family; Region: NMT1_2; cl15260 596154006963 Fic family protein [Function unknown]; Region: COG3177 596154006964 Fic/DOC family; Region: Fic; cl00960 596154006965 Helix-turn-helix domains; Region: HTH; cl00088 596154006966 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 596154006967 dimerization interface [polypeptide binding]; other site 596154006968 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154006969 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 596154006970 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154006971 Integrase core domain; Region: rve; cl01316 596154006972 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 596154006973 Helix-turn-helix domains; Region: HTH; cl00088 596154006974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154006975 NMT1-like family; Region: NMT1_2; cl15260 596154006976 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 596154006977 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 596154006978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154006979 EVE domain; Region: EVE; cl00728 596154006980 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 596154006981 NlpC/P60 family; Region: NLPC_P60; cl11438 596154006982 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 596154006983 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 596154006984 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154006985 putative substrate translocation pore; other site 596154006986 CHASE domain; Region: CHASE; cl01369 596154006987 PAS domain S-box; Region: sensory_box; TIGR00229 596154006988 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 596154006989 putative active site [active] 596154006990 heme pocket [chemical binding]; other site 596154006991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154006992 metal binding site [ion binding]; metal-binding site 596154006993 active site 596154006994 I-site; other site 596154006995 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 596154006996 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 596154006997 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 596154006998 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 596154006999 Walker A/P-loop; other site 596154007000 ATP binding site [chemical binding]; other site 596154007001 Q-loop/lid; other site 596154007002 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 596154007003 Q-loop/lid; other site 596154007004 ABC transporter signature motif; other site 596154007005 Walker B; other site 596154007006 D-loop; other site 596154007007 H-loop/switch region; other site 596154007008 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 596154007009 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 596154007010 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 596154007011 nucleotide binding pocket [chemical binding]; other site 596154007012 K-X-D-G motif; other site 596154007013 catalytic site [active] 596154007014 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 596154007015 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 596154007016 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 596154007017 Dimer interface [polypeptide binding]; other site 596154007018 BRCT sequence motif; other site 596154007019 hypothetical protein; Provisional; Region: PRK10279 596154007020 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 596154007021 nucleophile elbow; other site 596154007022 Transglycosylase; Region: Transgly; cl07896 596154007023 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154007024 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 596154007025 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154007026 putative substrate translocation pore; other site 596154007027 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 596154007028 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 596154007029 nudix motif; other site 596154007030 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154007031 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 596154007032 maleylacetoacetate isomerase; Region: maiA; TIGR01262 596154007033 C-terminal domain interface [polypeptide binding]; other site 596154007034 GSH binding site (G-site) [chemical binding]; other site 596154007035 putative dimer interface [polypeptide binding]; other site 596154007036 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 596154007037 dimer interface [polypeptide binding]; other site 596154007038 N-terminal domain interface [polypeptide binding]; other site 596154007039 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 596154007040 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 596154007041 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 596154007042 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 596154007043 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 596154007044 putative acyltransferase; Provisional; Region: PRK05790 596154007045 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 596154007046 dimer interface [polypeptide binding]; other site 596154007047 active site 596154007048 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 596154007049 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 596154007050 NAD(P) binding site [chemical binding]; other site 596154007051 homotetramer interface [polypeptide binding]; other site 596154007052 homodimer interface [polypeptide binding]; other site 596154007053 active site 596154007054 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 596154007055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007056 Walker A/P-loop; other site 596154007057 ATP binding site [chemical binding]; other site 596154007058 Q-loop/lid; other site 596154007059 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 596154007060 ABC transporter signature motif; other site 596154007061 Walker B; other site 596154007062 D-loop; other site 596154007063 ABC transporter; Region: ABC_tran_2; pfam12848 596154007064 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 596154007065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154007066 NMT1-like family; Region: NMT1_2; cl15260 596154007067 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154007068 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 596154007069 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154007070 active site 596154007071 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 596154007072 AMP-binding enzyme; Region: AMP-binding; cl15778 596154007073 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154007074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154007075 Helix-turn-helix domains; Region: HTH; cl00088 596154007076 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 596154007077 dimerization interface [polypeptide binding]; other site 596154007078 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 596154007079 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 596154007080 S-adenosylmethionine binding site [chemical binding]; other site 596154007081 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 596154007082 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 596154007083 metal binding site [ion binding]; metal-binding site 596154007084 dimer interface [polypeptide binding]; other site 596154007085 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 596154007086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007087 Walker A motif; other site 596154007088 ATP binding site [chemical binding]; other site 596154007089 Walker B motif; other site 596154007090 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 596154007091 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 596154007092 active site 596154007093 substrate binding site [chemical binding]; other site 596154007094 trimer interface [polypeptide binding]; other site 596154007095 CoA binding site [chemical binding]; other site 596154007096 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 596154007097 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 596154007098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154007099 homodimer interface [polypeptide binding]; other site 596154007100 catalytic residue [active] 596154007101 ferredoxin; Provisional; Region: PRK06991 596154007102 Putative Fe-S cluster; Region: FeS; pfam04060 596154007103 4Fe-4S binding domain; Region: Fer4; cl02805 596154007104 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 596154007105 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 596154007106 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 596154007107 synthetase active site [active] 596154007108 NTP binding site [chemical binding]; other site 596154007109 metal binding site [ion binding]; metal-binding site 596154007110 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 596154007111 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 596154007112 FMN binding site [chemical binding]; other site 596154007113 active site 596154007114 catalytic residues [active] 596154007115 substrate binding site [chemical binding]; other site 596154007116 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 596154007117 putative active site [active] 596154007118 putative catalytic site [active] 596154007119 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154007120 Helix-turn-helix domains; Region: HTH; cl00088 596154007121 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 596154007122 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 596154007123 AMP-binding enzyme; Region: AMP-binding; cl15778 596154007124 AMP-binding enzyme; Region: AMP-binding; cl15778 596154007125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154007126 DNA-binding site [nucleotide binding]; DNA binding site 596154007127 FCD domain; Region: FCD; cl11656 596154007128 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 596154007129 active site 596154007130 catalytic residues [active] 596154007131 metal binding site [ion binding]; metal-binding site 596154007132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154007133 NMT1-like family; Region: NMT1_2; cl15260 596154007134 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154007135 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154007136 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 596154007137 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 596154007138 non-specific DNA binding site [nucleotide binding]; other site 596154007139 salt bridge; other site 596154007140 sequence-specific DNA binding site [nucleotide binding]; other site 596154007141 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 596154007142 Domain of unknown function (DUF955); Region: DUF955; cl01076 596154007143 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 596154007144 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 596154007145 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 596154007146 active site 596154007147 substrate binding site [chemical binding]; other site 596154007148 coenzyme B12 binding site [chemical binding]; other site 596154007149 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 596154007150 B12 binding site [chemical binding]; other site 596154007151 cobalt ligand [ion binding]; other site 596154007152 membrane ATPase/protein kinase; Provisional; Region: PRK09435 596154007153 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 596154007154 Walker A; other site 596154007155 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 596154007156 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154007157 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154007158 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 596154007159 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154007160 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154007161 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154007162 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 596154007163 carboxyltransferase (CT) interaction site; other site 596154007164 biotinylation site [posttranslational modification]; other site 596154007165 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154007166 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 596154007167 dimer interface [polypeptide binding]; other site 596154007168 substrate binding site [chemical binding]; other site 596154007169 metal binding site [ion binding]; metal-binding site 596154007170 biotin synthase; Region: bioB; TIGR00433 596154007171 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 596154007172 FeS/SAM binding site; other site 596154007173 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 596154007174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154007175 NMT1-like family; Region: NMT1_2; cl15260 596154007176 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 596154007177 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 596154007178 active site 596154007179 phosphorylation site [posttranslational modification] 596154007180 intermolecular recognition site; other site 596154007181 dimerization interface [polypeptide binding]; other site 596154007182 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 596154007183 DNA binding site [nucleotide binding] 596154007184 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 596154007185 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 596154007186 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 596154007187 dimer interface [polypeptide binding]; other site 596154007188 phosphorylation site [posttranslational modification] 596154007189 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 596154007190 ATP binding site [chemical binding]; other site 596154007191 Mg2+ binding site [ion binding]; other site 596154007192 G-X-G motif; other site 596154007193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154007194 NMT1-like family; Region: NMT1_2; cl15260 596154007195 OsmC-like protein; Region: OsmC; cl00767 596154007196 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 596154007197 active site residue [active] 596154007198 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 596154007199 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 596154007200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007201 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 596154007202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007203 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 596154007204 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 596154007205 Protein export membrane protein; Region: SecD_SecF; cl14618 596154007206 Protein export membrane protein; Region: SecD_SecF; cl14618 596154007207 macrolide transporter subunit MacA; Provisional; Region: PRK11578 596154007208 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154007209 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 596154007210 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 596154007211 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 596154007212 dimerization interface [polypeptide binding]; other site 596154007213 putative DNA binding site [nucleotide binding]; other site 596154007214 putative Zn2+ binding site [ion binding]; other site 596154007215 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 596154007216 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 596154007217 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154007218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154007219 NMT1-like family; Region: NMT1_2; cl15260 596154007220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154007221 NMT1-like family; Region: NMT1_2; cl15260 596154007222 Transcriptional regulators [Transcription]; Region: PurR; COG1609 596154007223 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 596154007224 DNA binding site [nucleotide binding] 596154007225 domain linker motif; other site 596154007226 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 596154007227 putative dimerization interface [polypeptide binding]; other site 596154007228 putative ligand binding site [chemical binding]; other site 596154007229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007230 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154007231 NAD(P) binding site [chemical binding]; other site 596154007232 active site 596154007233 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 596154007234 histidinol dehydrogenase; Region: hisD; TIGR00069 596154007235 NAD binding site [chemical binding]; other site 596154007236 dimerization interface [polypeptide binding]; other site 596154007237 product binding site; other site 596154007238 substrate binding site [chemical binding]; other site 596154007239 zinc binding site [ion binding]; other site 596154007240 catalytic residues [active] 596154007241 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 596154007242 S-adenosylmethionine binding site [chemical binding]; other site 596154007243 DTW domain; Region: DTW; cl01221 596154007244 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 596154007245 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154007246 putative metal dependent hydrolase; Provisional; Region: PRK11598 596154007247 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 596154007248 Sulfatase; Region: Sulfatase; cl10460 596154007249 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 596154007250 active site 596154007251 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 596154007252 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 596154007253 active site 596154007254 phosphorylation site [posttranslational modification] 596154007255 intermolecular recognition site; other site 596154007256 dimerization interface [polypeptide binding]; other site 596154007257 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 596154007258 DNA binding site [nucleotide binding] 596154007259 sensor protein BasS/PmrB; Provisional; Region: PRK10755 596154007260 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 596154007261 ATP binding site [chemical binding]; other site 596154007262 Mg2+ binding site [ion binding]; other site 596154007263 G-X-G motif; other site 596154007264 enoyl-CoA hydratase; Provisional; Region: PRK06494 596154007265 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 596154007266 substrate binding site [chemical binding]; other site 596154007267 oxyanion hole (OAH) forming residues; other site 596154007268 trimer interface [polypeptide binding]; other site 596154007269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154007270 NMT1-like family; Region: NMT1_2; cl15260 596154007271 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 596154007272 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 596154007273 NAD(P) binding site [chemical binding]; other site 596154007274 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154007275 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154007276 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154007277 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154007278 active site 596154007279 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154007280 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154007281 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154007282 Helix-turn-helix domains; Region: HTH; cl00088 596154007283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007284 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 596154007285 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 596154007286 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 596154007287 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 596154007288 zinc binding site [ion binding]; other site 596154007289 putative ligand binding site [chemical binding]; other site 596154007290 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 596154007291 TM-ABC transporter signature motif; other site 596154007292 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 596154007293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007294 Walker A/P-loop; other site 596154007295 ATP binding site [chemical binding]; other site 596154007296 Q-loop/lid; other site 596154007297 ABC transporter signature motif; other site 596154007298 Walker B; other site 596154007299 D-loop; other site 596154007300 H-loop/switch region; other site 596154007301 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 596154007302 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 596154007303 Walker A motif; other site 596154007304 ATP binding site [chemical binding]; other site 596154007305 Walker B motif; other site 596154007306 arginine finger; other site 596154007307 Helix-turn-helix domains; Region: HTH; cl00088 596154007308 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 596154007309 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154007310 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 596154007311 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 596154007312 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 596154007313 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 596154007314 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 596154007315 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 596154007316 E3 interaction surface; other site 596154007317 lipoyl attachment site [posttranslational modification]; other site 596154007318 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 596154007319 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 596154007320 alpha subunit interface [polypeptide binding]; other site 596154007321 TPP binding site [chemical binding]; other site 596154007322 heterodimer interface [polypeptide binding]; other site 596154007323 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 596154007324 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 596154007325 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 596154007326 tetramer interface [polypeptide binding]; other site 596154007327 TPP-binding site [chemical binding]; other site 596154007328 heterodimer interface [polypeptide binding]; other site 596154007329 phosphorylation loop region [posttranslational modification] 596154007330 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154007331 Helix-turn-helix domains; Region: HTH; cl00088 596154007332 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 596154007333 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 596154007334 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 596154007335 DctM-like transporters; Region: DctM; pfam06808 596154007336 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 596154007337 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154007338 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 596154007339 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 596154007340 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 596154007341 lipoyl attachment site [posttranslational modification]; other site 596154007342 glycine dehydrogenase; Provisional; Region: PRK05367 596154007343 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 596154007344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154007345 catalytic residue [active] 596154007346 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 596154007347 tetramer interface [polypeptide binding]; other site 596154007348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154007349 catalytic residue [active] 596154007350 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 596154007351 putative metal binding site [ion binding]; other site 596154007352 putative homotetramer interface [polypeptide binding]; other site 596154007353 putative homodimer interface [polypeptide binding]; other site 596154007354 putative homodimer-homodimer interface [polypeptide binding]; other site 596154007355 putative allosteric switch controlling residues; other site 596154007356 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 596154007357 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 596154007358 substrate binding site [chemical binding]; other site 596154007359 catalytic Zn binding site [ion binding]; other site 596154007360 NAD binding site [chemical binding]; other site 596154007361 structural Zn binding site [ion binding]; other site 596154007362 dimer interface [polypeptide binding]; other site 596154007363 Predicted esterase [General function prediction only]; Region: COG0627 596154007364 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 596154007365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154007366 Helix-turn-helix domains; Region: HTH; cl00088 596154007367 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 596154007368 dimerization interface [polypeptide binding]; other site 596154007369 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 596154007370 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 596154007371 FeS/SAM binding site; other site 596154007372 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 596154007373 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 596154007374 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 596154007375 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 596154007376 FMN binding site [chemical binding]; other site 596154007377 substrate binding site [chemical binding]; other site 596154007378 putative catalytic residue [active] 596154007379 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 596154007380 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 596154007381 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154007382 active site 596154007383 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 596154007384 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 596154007385 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 596154007386 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 596154007387 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 596154007388 Ligand binding site [chemical binding]; other site 596154007389 Electron transfer flavoprotein domain; Region: ETF; pfam01012 596154007390 enoyl-CoA hydratase; Validated; Region: PRK08139 596154007391 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 596154007392 substrate binding site [chemical binding]; other site 596154007393 oxyanion hole (OAH) forming residues; other site 596154007394 trimer interface [polypeptide binding]; other site 596154007395 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 596154007396 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 596154007397 MoxR-like ATPases [General function prediction only]; Region: COG0714 596154007398 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 596154007399 Walker A motif; other site 596154007400 ATP binding site [chemical binding]; other site 596154007401 Walker B motif; other site 596154007402 arginine finger; other site 596154007403 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 596154007404 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 596154007405 Transglycosylase SLT domain; Region: SLT_2; pfam13406 596154007406 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 596154007407 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154007408 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 596154007409 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 596154007410 PYR/PP interface [polypeptide binding]; other site 596154007411 dimer interface [polypeptide binding]; other site 596154007412 TPP binding site [chemical binding]; other site 596154007413 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 596154007414 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 596154007415 TPP-binding site [chemical binding]; other site 596154007416 dimer interface [polypeptide binding]; other site 596154007417 DctM-like transporters; Region: DctM; pfam06808 596154007418 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 596154007419 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 596154007420 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 596154007421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154007422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007423 NAD(P) binding site [chemical binding]; other site 596154007424 active site 596154007425 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 596154007426 Helix-turn-helix domains; Region: HTH; cl00088 596154007427 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 596154007428 dimerization interface [polypeptide binding]; other site 596154007429 substrate binding pocket [chemical binding]; other site 596154007430 transketolase; Reviewed; Region: PRK05899 596154007431 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 596154007432 TPP-binding site [chemical binding]; other site 596154007433 dimer interface [polypeptide binding]; other site 596154007434 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 596154007435 PYR/PP interface [polypeptide binding]; other site 596154007436 dimer interface [polypeptide binding]; other site 596154007437 TPP binding site [chemical binding]; other site 596154007438 glycerate dehydrogenase; Provisional; Region: PRK06932 596154007439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007440 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 596154007441 Helix-turn-helix domains; Region: HTH; cl00088 596154007442 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 596154007443 putative dimerization interface [polypeptide binding]; other site 596154007444 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 596154007445 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154007446 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 596154007447 putative ligand binding site [chemical binding]; other site 596154007448 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 596154007449 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 596154007450 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 596154007451 FtsX-like permease family; Region: FtsX; cl15850 596154007452 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 596154007453 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 596154007454 Walker A/P-loop; other site 596154007455 ATP binding site [chemical binding]; other site 596154007456 Q-loop/lid; other site 596154007457 ABC transporter signature motif; other site 596154007458 Walker B; other site 596154007459 D-loop; other site 596154007460 H-loop/switch region; other site 596154007461 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 596154007462 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 596154007463 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 596154007464 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154007465 UGMP family protein; Validated; Region: PRK09604 596154007466 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 596154007467 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 596154007468 FOG: CBS domain [General function prediction only]; Region: COG0517 596154007469 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 596154007470 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 596154007471 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 596154007472 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 596154007473 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 596154007474 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 596154007475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154007476 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 596154007477 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 596154007478 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 596154007479 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 596154007480 [2Fe-2S] cluster binding site [ion binding]; other site 596154007481 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 596154007482 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 596154007483 [4Fe-4S] binding site [ion binding]; other site 596154007484 molybdopterin cofactor binding site; other site 596154007485 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 596154007486 molybdopterin cofactor binding site; other site 596154007487 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 596154007488 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 596154007489 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 596154007490 putative substrate translocation pore; other site 596154007491 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 596154007492 glycosyl transferase family protein; Provisional; Region: PRK08136 596154007493 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 596154007494 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 596154007495 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 596154007496 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 596154007497 HI0933-like protein; Region: HI0933_like; pfam03486 596154007498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007499 NnrS protein; Region: NnrS; cl01258 596154007500 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; cl00436 596154007501 Domain of unknown function DUF59; Region: DUF59; cl00941 596154007502 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 596154007503 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 596154007504 trimerization site [polypeptide binding]; other site 596154007505 active site 596154007506 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 596154007507 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 596154007508 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154007509 catalytic residue [active] 596154007510 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 596154007511 FeS assembly ATPase SufC; Region: sufC; TIGR01978 596154007512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007513 Walker A/P-loop; other site 596154007514 ATP binding site [chemical binding]; other site 596154007515 Q-loop/lid; other site 596154007516 ABC transporter signature motif; other site 596154007517 Walker B; other site 596154007518 D-loop; other site 596154007519 H-loop/switch region; other site 596154007520 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 596154007521 putative ABC transporter; Region: ycf24; CHL00085 596154007522 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 596154007523 GatB domain; Region: GatB_Yqey; cl11497 596154007524 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 596154007525 Zn2+ binding site [ion binding]; other site 596154007526 Mg2+ binding site [ion binding]; other site 596154007527 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 596154007528 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 596154007529 PAS domain; Region: PAS_9; pfam13426 596154007530 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 596154007531 putative active site [active] 596154007532 heme pocket [chemical binding]; other site 596154007533 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 596154007534 DNA binding residues [nucleotide binding] 596154007535 dimerization interface [polypeptide binding]; other site 596154007536 OpgC protein; Region: OpgC_C; cl00792 596154007537 N-acetylglutamate synthase; Validated; Region: PRK05279 596154007538 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 596154007539 putative feedback inhibition sensing region; other site 596154007540 putative nucleotide binding site [chemical binding]; other site 596154007541 putative substrate binding site [chemical binding]; other site 596154007542 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 596154007543 Coenzyme A binding pocket [chemical binding]; other site 596154007544 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 596154007545 homotrimer interaction site [polypeptide binding]; other site 596154007546 putative active site [active] 596154007547 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 596154007548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007550 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 596154007551 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154007552 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 596154007553 ligand binding site [chemical binding]; other site 596154007554 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 596154007555 TM-ABC transporter signature motif; other site 596154007556 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 596154007557 TM-ABC transporter signature motif; other site 596154007558 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154007559 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 596154007560 Walker A/P-loop; other site 596154007561 ATP binding site [chemical binding]; other site 596154007562 Q-loop/lid; other site 596154007563 ABC transporter signature motif; other site 596154007564 Walker B; other site 596154007565 D-loop; other site 596154007566 H-loop/switch region; other site 596154007567 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154007568 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 596154007569 Walker A/P-loop; other site 596154007570 ATP binding site [chemical binding]; other site 596154007571 Q-loop/lid; other site 596154007572 ABC transporter signature motif; other site 596154007573 Walker B; other site 596154007574 D-loop; other site 596154007575 H-loop/switch region; other site 596154007576 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154007577 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 596154007578 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 596154007579 dihydrodipicolinate synthase; Region: dapA; TIGR00674 596154007580 dimer interface [polypeptide binding]; other site 596154007581 active site 596154007582 catalytic residue [active] 596154007583 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 596154007584 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 596154007585 dimer interface [polypeptide binding]; other site 596154007586 PYR/PP interface [polypeptide binding]; other site 596154007587 TPP binding site [chemical binding]; other site 596154007588 substrate binding site [chemical binding]; other site 596154007589 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 596154007590 TPP-binding site [chemical binding]; other site 596154007591 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 596154007592 Transcriptional regulators [Transcription]; Region: GntR; COG1802 596154007593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154007594 DNA-binding site [nucleotide binding]; DNA binding site 596154007595 FCD domain; Region: FCD; cl11656 596154007596 GAF domain; Region: GAF_2; pfam13185 596154007597 GAF domain; Region: GAF; cl15785 596154007598 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 596154007599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 596154007600 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 596154007601 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 596154007602 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 596154007603 Walker A/P-loop; other site 596154007604 ATP binding site [chemical binding]; other site 596154007605 Q-loop/lid; other site 596154007606 ABC transporter signature motif; other site 596154007607 Walker B; other site 596154007608 D-loop; other site 596154007609 H-loop/switch region; other site 596154007610 TOBE-like domain; Region: TOBE_3; pfam12857 596154007611 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 596154007612 dimer interface [polypeptide binding]; other site 596154007613 conserved gate region; other site 596154007614 putative PBP binding loops; other site 596154007615 ABC-ATPase subunit interface; other site 596154007616 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 596154007617 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 596154007618 dimer interface [polypeptide binding]; other site 596154007619 conserved gate region; other site 596154007620 putative PBP binding loops; other site 596154007621 ABC-ATPase subunit interface; other site 596154007622 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 596154007623 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 596154007624 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 596154007625 LysR family transcriptional regulator; Provisional; Region: PRK14997 596154007626 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 596154007627 putative effector binding pocket; other site 596154007628 putative dimerization interface [polypeptide binding]; other site 596154007629 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 596154007630 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 596154007631 NMT1-like family; Region: NMT1_2; cl15260 596154007632 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 596154007633 dimer interface [polypeptide binding]; other site 596154007634 conserved gate region; other site 596154007635 ABC-ATPase subunit interface; other site 596154007636 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 596154007637 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 596154007638 Walker A/P-loop; other site 596154007639 ATP binding site [chemical binding]; other site 596154007640 Q-loop/lid; other site 596154007641 ABC transporter signature motif; other site 596154007642 Walker B; other site 596154007643 D-loop; other site 596154007644 H-loop/switch region; other site 596154007645 NIL domain; Region: NIL; cl09633 596154007646 MAPEG family; Region: MAPEG; cl09190 596154007647 recombination protein RecR; Reviewed; Region: recR; PRK00076 596154007648 RecR protein; Region: RecR; pfam02132 596154007649 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 596154007650 putative active site [active] 596154007651 putative metal-binding site [ion binding]; other site 596154007652 tetramer interface [polypeptide binding]; other site 596154007653 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 596154007654 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 596154007655 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 596154007656 Walker A motif; other site 596154007657 ATP binding site [chemical binding]; other site 596154007658 Walker B motif; other site 596154007659 arginine finger; other site 596154007660 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 596154007661 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 596154007662 Helix-turn-helix domains; Region: HTH; cl00088 596154007663 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 596154007664 TOBE domain; Region: TOBE_2; cl01440 596154007665 TOBE domain; Region: TOBE_2; cl01440 596154007666 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 596154007667 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 596154007668 active site 596154007669 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 596154007670 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 596154007671 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 596154007672 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 596154007673 Uncharacterized conserved protein [Function unknown]; Region: COG2014 596154007674 Domain of unknown function (DUF364); Region: DUF364; pfam04016 596154007675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007676 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 596154007677 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 596154007678 Walker A/P-loop; other site 596154007679 ATP binding site [chemical binding]; other site 596154007680 Q-loop/lid; other site 596154007681 ABC transporter signature motif; other site 596154007682 Walker B; other site 596154007683 D-loop; other site 596154007684 H-loop/switch region; other site 596154007685 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 596154007686 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 596154007687 putative PBP binding regions; other site 596154007688 ABC-ATPase subunit interface; other site 596154007689 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 596154007690 intersubunit interface [polypeptide binding]; other site 596154007691 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007692 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 596154007693 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 596154007694 N-terminal plug; other site 596154007695 ligand-binding site [chemical binding]; other site 596154007696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007697 HI0933-like protein; Region: HI0933_like; pfam03486 596154007698 Pirin-related protein [General function prediction only]; Region: COG1741 596154007699 Cupin domain; Region: Cupin_2; cl09118 596154007700 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 596154007701 Pirin-related protein [General function prediction only]; Region: COG1741 596154007702 Cupin domain; Region: Cupin_2; cl09118 596154007703 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 596154007704 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 596154007705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007706 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 596154007707 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 596154007708 catalytic residues [active] 596154007709 transcription termination factor Rho; Provisional; Region: rho; PRK09376 596154007710 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 596154007711 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 596154007712 RNA binding site [nucleotide binding]; other site 596154007713 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 596154007714 multimer interface [polypeptide binding]; other site 596154007715 Walker A motif; other site 596154007716 ATP binding site [chemical binding]; other site 596154007717 Walker B motif; other site 596154007718 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 596154007719 putative efflux protein, MATE family; Region: matE; TIGR00797 596154007720 MatE; Region: MatE; cl10513 596154007721 MatE; Region: MatE; cl10513 596154007722 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 596154007723 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 596154007724 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 596154007725 dimer interface [polypeptide binding]; other site 596154007726 phosphorylation site [posttranslational modification] 596154007727 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 596154007728 ATP binding site [chemical binding]; other site 596154007729 Mg2+ binding site [ion binding]; other site 596154007730 G-X-G motif; other site 596154007731 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 596154007732 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 596154007733 active site 596154007734 phosphorylation site [posttranslational modification] 596154007735 intermolecular recognition site; other site 596154007736 dimerization interface [polypeptide binding]; other site 596154007737 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 596154007738 DNA binding site [nucleotide binding] 596154007739 transcriptional regulator PhoU; Provisional; Region: PRK11115 596154007740 PhoU domain; Region: PhoU; pfam01895 596154007741 PhoU domain; Region: PhoU; pfam01895 596154007742 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 596154007743 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 596154007744 Walker A/P-loop; other site 596154007745 ATP binding site [chemical binding]; other site 596154007746 Q-loop/lid; other site 596154007747 ABC transporter signature motif; other site 596154007748 Walker B; other site 596154007749 D-loop; other site 596154007750 H-loop/switch region; other site 596154007751 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 596154007752 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 596154007753 dimer interface [polypeptide binding]; other site 596154007754 conserved gate region; other site 596154007755 putative PBP binding loops; other site 596154007756 ABC-ATPase subunit interface; other site 596154007757 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 596154007758 dimer interface [polypeptide binding]; other site 596154007759 conserved gate region; other site 596154007760 putative PBP binding loops; other site 596154007761 ABC-ATPase subunit interface; other site 596154007762 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 596154007763 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 596154007764 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 596154007765 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; cd07040 596154007766 catalytic core [active] 596154007767 polyphosphate kinase; Provisional; Region: PRK05443 596154007768 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 596154007769 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 596154007770 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 596154007771 putative domain interface [polypeptide binding]; other site 596154007772 putative active site [active] 596154007773 catalytic site [active] 596154007774 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 596154007775 putative active site [active] 596154007776 catalytic site [active] 596154007777 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154007778 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 596154007779 PAS domain S-box; Region: sensory_box; TIGR00229 596154007780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154007781 metal binding site [ion binding]; metal-binding site 596154007782 active site 596154007783 I-site; other site 596154007784 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 596154007785 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 596154007786 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 596154007787 active site 596154007788 substrate binding site [chemical binding]; other site 596154007789 metal binding site [ion binding]; metal-binding site 596154007790 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 596154007791 dihydropteroate synthase; Region: DHPS; TIGR01496 596154007792 substrate binding pocket [chemical binding]; other site 596154007793 dimer interface [polypeptide binding]; other site 596154007794 inhibitor binding site; inhibition site 596154007795 FtsH Extracellular; Region: FtsH_ext; pfam06480 596154007796 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 596154007797 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 596154007798 Walker A motif; other site 596154007799 ATP binding site [chemical binding]; other site 596154007800 Walker B motif; other site 596154007801 arginine finger; other site 596154007802 Peptidase family M41; Region: Peptidase_M41; pfam01434 596154007803 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 596154007804 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 596154007805 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 596154007806 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 596154007807 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 596154007808 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 596154007809 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 596154007810 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 596154007811 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154007812 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154007813 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 596154007814 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154007815 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154007816 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 596154007817 IMP binding site; other site 596154007818 dimer interface [polypeptide binding]; other site 596154007819 interdomain contacts; other site 596154007820 partial ornithine binding site; other site 596154007821 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 596154007822 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 596154007823 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 596154007824 catalytic site [active] 596154007825 subunit interface [polypeptide binding]; other site 596154007826 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 596154007827 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 596154007828 active site 596154007829 Int/Topo IB signature motif; other site 596154007830 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154007831 Helix-turn-helix domains; Region: HTH; cl00088 596154007832 integrase; Provisional; Region: PRK09692 596154007833 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 596154007834 active site 596154007835 Int/Topo IB signature motif; other site 596154007836 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154007837 Restriction endonuclease; Region: Mrr_cat; cl00516 596154007838 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154007839 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 596154007840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007841 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 596154007842 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 596154007843 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 596154007844 putative active site [active] 596154007845 putative metal-binding site [ion binding]; other site 596154007846 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 596154007847 Helix-turn-helix domains; Region: HTH; cl00088 596154007848 putative transposase OrfB; Reviewed; Region: PHA02517 596154007849 HTH-like domain; Region: HTH_21; pfam13276 596154007850 Integrase core domain; Region: rve; cl01316 596154007851 Integrase core domain; Region: rve_3; cl15866 596154007852 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 596154007853 S-adenosylmethionine binding site [chemical binding]; other site 596154007854 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 596154007855 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154007856 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154007857 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154007858 Outer membrane efflux protein; Region: OEP; pfam02321 596154007859 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 596154007860 ATP synthase; Region: ATP-synt; cl00365 596154007861 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 596154007862 Acetokinase family; Region: Acetate_kinase; cl01029 596154007863 propionate/acetate kinase; Provisional; Region: PRK12379 596154007864 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 596154007865 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 596154007866 DNA binding residues [nucleotide binding] 596154007867 dimer interface [polypeptide binding]; other site 596154007868 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 596154007869 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 596154007870 S-adenosylmethionine binding site [chemical binding]; other site 596154007871 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 596154007872 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 596154007873 TPP-binding site [chemical binding]; other site 596154007874 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 596154007875 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 596154007876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007877 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 596154007878 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 596154007879 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154007880 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 596154007881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154007882 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 596154007883 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 596154007884 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 596154007885 protein binding site [polypeptide binding]; other site 596154007886 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 596154007887 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 596154007888 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154007889 active site 596154007890 thymidine phosphorylase; Provisional; Region: PRK04350 596154007891 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 596154007892 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 596154007893 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 596154007894 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 596154007895 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154007896 Beta-Casp domain; Region: Beta-Casp; cl12567 596154007897 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 596154007898 Repair protein; Region: Repair_PSII; cl01535 596154007899 Repair protein; Region: Repair_PSII; cl01535 596154007900 LemA family; Region: LemA; cl00742 596154007901 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 596154007902 metal-binding site [ion binding] 596154007903 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154007904 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154007905 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154007906 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 596154007907 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 596154007908 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 596154007909 DNA binding residues [nucleotide binding] 596154007910 dimer interface [polypeptide binding]; other site 596154007911 mercury binding site [ion binding]; other site 596154007912 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 596154007913 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 596154007914 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 596154007915 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 596154007916 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 596154007917 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 596154007918 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 596154007919 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 596154007920 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 596154007921 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 596154007922 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 596154007923 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 596154007924 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 596154007925 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 596154007926 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 596154007927 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 596154007928 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 596154007929 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 596154007930 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154007931 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154007932 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154007933 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 596154007934 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 596154007935 metal-binding site [ion binding] 596154007936 Phospholipid methyltransferase; Region: PEMT; cl00763 596154007937 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 596154007938 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 596154007939 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 596154007940 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 596154007941 active site 596154007942 phosphorylation site [posttranslational modification] 596154007943 intermolecular recognition site; other site 596154007944 dimerization interface [polypeptide binding]; other site 596154007945 Helix-turn-helix domains; Region: HTH; cl00088 596154007946 putative transposase OrfB; Reviewed; Region: PHA02517 596154007947 HTH-like domain; Region: HTH_21; pfam13276 596154007948 Integrase core domain; Region: rve; cl01316 596154007949 Integrase core domain; Region: rve_3; cl15866 596154007950 Helix-turn-helix domains; Region: HTH; cl00088 596154007951 TIR domain; Region: TIR_2; cl15770 596154007952 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154007953 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 596154007954 PRTRC system protein D; Region: PRTRC_D; TIGR03739 596154007955 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 596154007956 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 596154007957 H-NS histone family; Region: Histone_HNS; pfam00816 596154007958 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 596154007959 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 596154007960 PRTRC system protein A; Region: PRTRC_A; TIGR03735 596154007961 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 596154007962 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 596154007963 Helix-turn-helix domains; Region: HTH; cl00088 596154007964 Winged helix-turn helix; Region: HTH_29; pfam13551 596154007965 Integrase core domain; Region: rve; cl01316 596154007966 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 596154007967 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 596154007968 PRTRC system protein E; Region: PRTRC_E; TIGR03741 596154007969 ParB-like nuclease domain; Region: ParBc; cl02129 596154007970 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 596154007971 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 596154007972 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 596154007973 ATP binding site [chemical binding]; other site 596154007974 putative Mg++ binding site [ion binding]; other site 596154007975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007976 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154007977 Helix-turn-helix domains; Region: HTH; cl00088 596154007978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 596154007979 CHC2 zinc finger; Region: zf-CHC2; cl15369 596154007980 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 596154007981 KxxxW cyclic peptide radical SAM maturase; Region: rSAM_pep_cyc; TIGR04080 596154007982 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 596154007983 Catalytic site [active] 596154007984 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 596154007985 Putative helicase; Region: TraI_2; pfam07514 596154007986 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 596154007987 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 596154007988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154007990 Walker B motif; other site 596154007991 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 596154007992 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 596154007993 sequence-specific DNA binding site [nucleotide binding]; other site 596154007994 salt bridge; other site 596154007995 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 596154007996 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154007997 catalytic residue [active] 596154007998 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154007999 ligand binding site [chemical binding]; other site 596154008000 TraL protein; Region: TraL; cl06278 596154008001 TraE protein; Region: TraE; cl05060 596154008002 TraK protein; Region: TraK; pfam06586 596154008003 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 596154008004 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 596154008005 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 596154008006 dimerization domain [polypeptide binding]; other site 596154008007 dimer interface [polypeptide binding]; other site 596154008008 catalytic residues [active] 596154008009 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 596154008010 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 596154008011 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154008012 Walker A motif; other site 596154008013 ATP binding site [chemical binding]; other site 596154008014 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 596154008015 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 596154008016 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 596154008017 TraU protein; Region: TraU; cl06067 596154008018 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 596154008019 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154008020 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154008021 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154008022 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154008023 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 596154008024 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 596154008025 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; cd00190 596154008026 active site 596154008027 substrate binding sites [chemical binding]; other site 596154008028 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 596154008029 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 596154008030 DNA binding residues [nucleotide binding] 596154008031 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 596154008032 IHF - DNA interface [nucleotide binding]; other site 596154008033 IHF dimer interface [polypeptide binding]; other site 596154008034 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 596154008035 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 596154008036 putative tRNA-binding site [nucleotide binding]; other site 596154008037 B3/4 domain; Region: B3_4; cl11458 596154008038 tRNA synthetase B5 domain; Region: B5; cl08394 596154008039 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 596154008040 dimer interface [polypeptide binding]; other site 596154008041 motif 1; other site 596154008042 motif 3; other site 596154008043 motif 2; other site 596154008044 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 596154008045 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 596154008046 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 596154008047 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 596154008048 dimer interface [polypeptide binding]; other site 596154008049 motif 1; other site 596154008050 active site 596154008051 motif 2; other site 596154008052 motif 3; other site 596154008053 ribosomal protein L20; Region: rpl20; CHL00068 596154008054 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 596154008055 23S rRNA binding site [nucleotide binding]; other site 596154008056 L21 binding site [polypeptide binding]; other site 596154008057 L13 binding site [polypeptide binding]; other site 596154008058 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 596154008059 translation initiation factor IF-3; Region: infC; TIGR00168 596154008060 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 596154008061 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 596154008062 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 596154008063 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 596154008064 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 596154008065 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 596154008066 active site 596154008067 dimer interface [polypeptide binding]; other site 596154008068 motif 1; other site 596154008069 motif 2; other site 596154008070 motif 3; other site 596154008071 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 596154008072 anticodon binding site; other site 596154008073 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154008074 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 596154008075 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 596154008076 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 596154008077 tetramer interface [polypeptide binding]; other site 596154008078 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 596154008079 active site 596154008080 Mg2+/Mn2+ binding site [ion binding]; other site 596154008081 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 596154008082 EamA-like transporter family; Region: EamA; cl01037 596154008083 EamA-like transporter family; Region: EamA; cl01037 596154008084 SWIB/MDM2 domain; Region: SWIB; cl02489 596154008085 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 596154008086 Gram-negative bacterial tonB protein; Region: TonB; cl10048 596154008087 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 596154008088 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 596154008089 Hemin uptake protein hemP; Region: hemP; cl10043 596154008090 Domain of unknown function (DUF336); Region: DUF336; cl01249 596154008091 YccA-like proteins; Region: YccA_like; cd10433 596154008092 Helix-turn-helix domains; Region: HTH; cl00088 596154008093 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 596154008094 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 596154008095 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 596154008096 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 596154008097 Chromate transporter; Region: Chromate_transp; pfam02417 596154008098 Chromate transporter; Region: Chromate_transp; pfam02417 596154008099 NAD-dependent deacetylase; Provisional; Region: PRK00481 596154008100 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 596154008101 NAD+ binding site [chemical binding]; other site 596154008102 substrate binding site [chemical binding]; other site 596154008103 Zn binding site [ion binding]; other site 596154008104 Helix-turn-helix domains; Region: HTH; cl00088 596154008105 WHG domain; Region: WHG; pfam13305 596154008106 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 596154008107 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 596154008108 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 596154008109 dimer interface [polypeptide binding]; other site 596154008110 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154008111 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 596154008112 putative hydrophobic ligand binding site [chemical binding]; other site 596154008113 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 596154008114 dimer interface [polypeptide binding]; other site 596154008115 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 596154008116 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154008117 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 596154008118 putative hydrophobic ligand binding site [chemical binding]; other site 596154008119 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 596154008120 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 596154008121 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 596154008122 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 596154008123 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 596154008124 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 596154008125 Walker A/P-loop; other site 596154008126 ATP binding site [chemical binding]; other site 596154008127 Q-loop/lid; other site 596154008128 ABC transporter signature motif; other site 596154008129 Walker B; other site 596154008130 D-loop; other site 596154008131 H-loop/switch region; other site 596154008132 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 596154008133 active site 596154008134 catalytic triad [active] 596154008135 oxyanion hole [active] 596154008136 switch loop; other site 596154008137 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 596154008138 cystathionine beta-lyase; Provisional; Region: PRK07050 596154008139 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 596154008140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154008141 catalytic residue [active] 596154008142 BON domain; Region: BON; cl02771 596154008143 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 596154008144 Sulfate transporter family; Region: Sulfate_transp; cl15842 596154008145 Sulfate transporter family; Region: Sulfate_transp; cl15842 596154008146 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 596154008147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154008148 metal binding site [ion binding]; metal-binding site 596154008149 active site 596154008150 I-site; other site 596154008151 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 596154008152 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 596154008153 P-loop; other site 596154008154 ADP binding residues [chemical binding]; other site 596154008155 Switch I; other site 596154008156 Switch II; other site 596154008157 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 596154008158 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 596154008159 AMP-binding enzyme; Region: AMP-binding; cl15778 596154008160 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154008161 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 596154008162 Isochorismatase family; Region: Isochorismatase; pfam00857 596154008163 catalytic triad [active] 596154008164 dimer interface [polypeptide binding]; other site 596154008165 conserved cis-peptide bond; other site 596154008166 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 596154008167 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 596154008168 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 596154008169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154008170 Helix-turn-helix domains; Region: HTH; cl00088 596154008171 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 596154008172 dimerization interface [polypeptide binding]; other site 596154008173 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 596154008174 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154008175 tetrameric interface [polypeptide binding]; other site 596154008176 NAD binding site [chemical binding]; other site 596154008177 catalytic residues [active] 596154008178 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 596154008179 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154008180 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154008181 active site 596154008182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008183 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 596154008184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008185 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 596154008186 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 596154008187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154008188 catalytic residue [active] 596154008189 Protein with unknown function (DUF469); Region: DUF469; cl01237 596154008190 galactarate dehydratase; Region: galactar-dH20; TIGR03248 596154008191 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 596154008192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154008193 NMT1-like family; Region: NMT1_2; cl15260 596154008194 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 596154008195 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 596154008196 active site 596154008197 tetramer interface [polypeptide binding]; other site 596154008198 Transcriptional regulators [Transcription]; Region: FadR; COG2186 596154008199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154008200 DNA-binding site [nucleotide binding]; DNA binding site 596154008201 FCD domain; Region: FCD; cl11656 596154008202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154008203 NMT1-like family; Region: NMT1_2; cl15260 596154008204 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 596154008205 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 596154008206 putative active site [active] 596154008207 catalytic residue [active] 596154008208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154008209 NMT1-like family; Region: NMT1_2; cl15260 596154008210 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 596154008211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008212 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 596154008213 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 596154008214 active site 596154008215 tetramer interface [polypeptide binding]; other site 596154008216 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 596154008217 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154008218 NAD(P) binding site [chemical binding]; other site 596154008219 catalytic residues [active] 596154008220 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154008221 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 596154008222 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 596154008223 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154008224 Cupin domain; Region: Cupin_2; cl09118 596154008225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154008226 Helix-turn-helix domains; Region: HTH; cl00088 596154008227 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 596154008228 dimerization interface [polypeptide binding]; other site 596154008229 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 596154008230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008231 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154008232 active site 596154008233 HIGH motif; other site 596154008234 nucleotide binding site [chemical binding]; other site 596154008235 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154008236 active site 596154008237 KMSKS motif; other site 596154008238 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 596154008239 S-adenosylmethionine binding site [chemical binding]; other site 596154008240 translocation protein TolB; Provisional; Region: tolB; PRK01742 596154008241 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154008242 metal binding site [ion binding]; metal-binding site 596154008243 active site 596154008244 I-site; other site 596154008245 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 596154008246 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 596154008247 motif 1; other site 596154008248 active site 596154008249 motif 2; other site 596154008250 motif 3; other site 596154008251 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 596154008252 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 596154008253 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 596154008254 inhibitor site; inhibition site 596154008255 active site 596154008256 dimer interface [polypeptide binding]; other site 596154008257 catalytic residue [active] 596154008258 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 596154008259 DctM-like transporters; Region: DctM; pfam06808 596154008260 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 596154008261 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 596154008262 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 596154008263 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 596154008264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154008265 DNA-binding site [nucleotide binding]; DNA binding site 596154008266 FCD domain; Region: FCD; cl11656 596154008267 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 596154008268 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 596154008269 probable active site [active] 596154008270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008271 CoA-ligase; Region: Ligase_CoA; cl02894 596154008272 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154008273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 596154008274 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154008275 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 596154008276 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 596154008277 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 596154008278 active site 596154008279 substrate binding site [chemical binding]; other site 596154008280 metal binding site [ion binding]; metal-binding site 596154008281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154008282 NMT1-like family; Region: NMT1_2; cl15260 596154008283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154008284 NMT1-like family; Region: NMT1_2; cl15260 596154008285 KduI/IolB family; Region: KduI; cl01508 596154008286 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 596154008287 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 596154008288 substrate binding site [chemical binding]; other site 596154008289 ATP binding site [chemical binding]; other site 596154008290 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 596154008291 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 596154008292 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 596154008293 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 596154008294 putative active site [active] 596154008295 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 596154008296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 596154008297 Helix-turn-helix domain; Region: HTH_18; pfam12833 596154008298 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 596154008299 AlkA N-terminal domain; Region: AlkA_N; cl05528 596154008300 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 596154008301 minor groove reading motif; other site 596154008302 helix-hairpin-helix signature motif; other site 596154008303 active site 596154008304 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 596154008305 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 596154008306 DNA binding site [nucleotide binding] 596154008307 active site 596154008308 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 596154008309 EamA-like transporter family; Region: EamA; cl01037 596154008310 cyclase homology domain; Region: CHD; cd07302 596154008311 nucleotidyl binding site; other site 596154008312 metal binding site [ion binding]; metal-binding site 596154008313 dimer interface [polypeptide binding]; other site 596154008314 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 596154008315 phosphopeptide binding site; other site 596154008316 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 596154008317 dimer interface [polypeptide binding]; other site 596154008318 catalytic triad [active] 596154008319 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 596154008320 nucleoside/Zn binding site; other site 596154008321 dimer interface [polypeptide binding]; other site 596154008322 catalytic motif [active] 596154008323 haloalkane dehalogenase; Provisional; Region: PRK00870 596154008324 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 596154008325 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 596154008326 Peptidase family U32; Region: Peptidase_U32; cl03113 596154008327 Collagenase; Region: DUF3656; pfam12392 596154008328 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 596154008329 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 596154008330 homodimer interface [polypeptide binding]; other site 596154008331 substrate-cofactor binding pocket; other site 596154008332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154008333 catalytic residue [active] 596154008334 TIGR03440 family protein; Region: unchr_TIGR03440 596154008335 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 596154008336 probable methyltransferase; Region: TIGR03438 596154008337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008338 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 596154008339 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 596154008340 Protein of unknown function (DUF808); Region: DUF808; cl01002 596154008341 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 596154008342 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 596154008343 dimerization interface [polypeptide binding]; other site 596154008344 ATP binding site [chemical binding]; other site 596154008345 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 596154008346 dimerization interface [polypeptide binding]; other site 596154008347 ATP binding site [chemical binding]; other site 596154008348 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 596154008349 putative active site [active] 596154008350 catalytic triad [active] 596154008351 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 596154008352 active site 596154008353 PII uridylyl-transferase; Provisional; Region: PRK03059 596154008354 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 596154008355 metal binding triad; other site 596154008356 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 596154008357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 596154008358 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 596154008359 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 596154008360 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 596154008361 xanthine permease; Region: pbuX; TIGR03173 596154008362 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 596154008363 active site 596154008364 catalytic residues [active] 596154008365 metal binding site [ion binding]; metal-binding site 596154008366 Protein of unknown function (DUF454); Region: DUF454; cl01063 596154008367 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 596154008368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154008369 AAA domain; Region: AAA_33; pfam13671 596154008370 isocitrate dehydrogenase; Validated; Region: PRK07362 596154008371 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 596154008372 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 596154008373 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 596154008374 superoxide dismutase; Provisional; Region: PRK10543 596154008375 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 596154008376 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 596154008377 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 596154008378 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 596154008379 generic binding surface II; other site 596154008380 generic binding surface I; other site 596154008381 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 596154008382 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 596154008383 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 596154008384 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 596154008385 Trm112p-like protein; Region: Trm112p; cl01066 596154008386 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 596154008387 Ligand binding site; other site 596154008388 oligomer interface; other site 596154008389 adenylate kinase; Reviewed; Region: adk; PRK00279 596154008390 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 596154008391 AMP-binding site [chemical binding]; other site 596154008392 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 596154008393 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 596154008394 active site 596154008395 homotetramer interface [polypeptide binding]; other site 596154008396 homodimer interface [polypeptide binding]; other site 596154008397 LexA repressor; Validated; Region: PRK00215 596154008398 Helix-turn-helix domains; Region: HTH; cl00088 596154008399 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 596154008400 Catalytic site [active] 596154008401 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 596154008402 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 596154008403 ATP binding site [chemical binding]; other site 596154008404 putative Mg++ binding site [ion binding]; other site 596154008405 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 596154008406 nucleotide binding region [chemical binding]; other site 596154008407 ATP-binding site [chemical binding]; other site 596154008408 Helicase associated domain (HA2); Region: HA2; cl04503 596154008409 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 596154008410 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 596154008411 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 596154008412 active site 596154008413 acyl-CoA synthetase; Validated; Region: PRK07638 596154008414 AMP-binding enzyme; Region: AMP-binding; cl15778 596154008415 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 596154008416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154008417 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 596154008418 Walker A/P-loop; other site 596154008419 ATP binding site [chemical binding]; other site 596154008420 Q-loop/lid; other site 596154008421 ABC transporter signature motif; other site 596154008422 Walker B; other site 596154008423 D-loop; other site 596154008424 H-loop/switch region; other site 596154008425 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 596154008426 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154008427 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 596154008428 dimer interface [polypeptide binding]; other site 596154008429 active site 596154008430 metal binding site [ion binding]; metal-binding site 596154008431 glutathione binding site [chemical binding]; other site 596154008432 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 596154008433 transposase/IS protein; Provisional; Region: PRK09183 596154008434 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 596154008435 Walker A motif; other site 596154008436 ATP binding site [chemical binding]; other site 596154008437 Walker B motif; other site 596154008438 arginine finger; other site 596154008439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154008440 Helix-turn-helix domains; Region: HTH; cl00088 596154008441 Integrase core domain; Region: rve; cl01316 596154008442 Protein of unknown function (DUF736); Region: DUF736; cl02303 596154008443 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 596154008444 non-specific DNA binding site [nucleotide binding]; other site 596154008445 salt bridge; other site 596154008446 sequence-specific DNA binding site [nucleotide binding]; other site 596154008447 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 596154008448 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 596154008449 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154008450 Replication initiator protein A; Region: RPA; cl02339 596154008451 ParA-like protein; Provisional; Region: PHA02518 596154008452 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 596154008453 P-loop; other site 596154008454 Magnesium ion binding site [ion binding]; other site 596154008455 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 596154008456 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 596154008457 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 596154008458 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 596154008459 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 596154008460 ferrochelatase; Reviewed; Region: hemH; PRK00035 596154008461 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 596154008462 C-terminal domain interface [polypeptide binding]; other site 596154008463 active site 596154008464 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 596154008465 active site 596154008466 N-terminal domain interface [polypeptide binding]; other site 596154008467 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 596154008468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 596154008469 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 596154008470 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 596154008471 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 596154008472 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 596154008473 Helix-turn-helix domains; Region: HTH; cl00088 596154008474 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 596154008475 dimerization interface [polypeptide binding]; other site 596154008476 Integral membrane protein TerC family; Region: TerC; cl10468 596154008477 tellurium resistance terB-like protein; Region: terB_like; cd07177 596154008478 metal binding site [ion binding]; metal-binding site 596154008479 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 596154008480 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 596154008481 Helix-turn-helix domains; Region: HTH; cl00088 596154008482 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 596154008483 putative dimerization interface [polypeptide binding]; other site 596154008484 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 596154008485 catalytic residues [active] 596154008486 dimer interface [polypeptide binding]; other site 596154008487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008488 TIGR01777 family protein; Region: yfcH 596154008489 NAD(P) binding site [chemical binding]; other site 596154008490 active site 596154008491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008492 NAD(P) binding site [chemical binding]; other site 596154008493 active site 596154008494 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 596154008495 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 596154008496 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 596154008497 Fasciclin domain; Region: Fasciclin; cl02663 596154008498 Fasciclin domain; Region: Fasciclin; cl02663 596154008499 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 596154008500 DNA photolyase; Region: DNA_photolyase; pfam00875 596154008501 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 596154008502 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 596154008503 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 596154008504 DNA binding residues [nucleotide binding] 596154008505 B12 binding domain; Region: B12-binding_2; cl03653 596154008506 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 596154008507 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 596154008508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008509 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 596154008510 Uncharacterized conserved protein [Function unknown]; Region: COG3496 596154008511 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 596154008512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008513 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 596154008514 S-adenosylmethionine binding site [chemical binding]; other site 596154008515 MFS/sugar transport protein; Region: MFS_2; pfam13347 596154008516 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 596154008517 short chain dehydrogenase; Provisional; Region: PRK06101 596154008518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008519 NAD(P) binding site [chemical binding]; other site 596154008520 active site 596154008521 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 596154008522 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 596154008523 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 596154008524 putative C-terminal domain interface [polypeptide binding]; other site 596154008525 putative GSH binding site (G-site) [chemical binding]; other site 596154008526 putative dimer interface [polypeptide binding]; other site 596154008527 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 596154008528 putative N-terminal domain interface [polypeptide binding]; other site 596154008529 putative dimer interface [polypeptide binding]; other site 596154008530 putative substrate binding pocket (H-site) [chemical binding]; other site 596154008531 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 596154008532 DNA photolyase; Region: DNA_photolyase; pfam00875 596154008533 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 596154008534 Helix-turn-helix domains; Region: HTH; cl00088 596154008535 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 596154008536 dimerization interface [polypeptide binding]; other site 596154008537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154008538 Integrase core domain; Region: rve; cl01316 596154008539 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 596154008540 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 596154008541 Walker A motif; other site 596154008542 ATP binding site [chemical binding]; other site 596154008543 Walker B motif; other site 596154008544 arginine finger; other site 596154008545 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 596154008546 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 596154008547 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 596154008548 Int/Topo IB signature motif; other site 596154008549 active site 596154008550 DNA binding site [nucleotide binding] 596154008551 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 596154008552 Helix-turn-helix domains; Region: HTH; cl00088 596154008553 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 596154008554 dimerizarion interface [polypeptide binding]; other site 596154008555 CrgA pocket; other site 596154008556 substrate binding pocket [chemical binding]; other site 596154008557 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 596154008558 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 596154008559 active site 596154008560 intersubunit interface [polypeptide binding]; other site 596154008561 catalytic residue [active] 596154008562 Dehydratase family; Region: ILVD_EDD; cl00340 596154008563 6-phosphogluconate dehydratase; Region: edd; TIGR01196 596154008564 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 596154008565 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 596154008566 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 596154008567 DctM-like transporters; Region: DctM; pfam06808 596154008568 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 596154008569 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 596154008570 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 596154008571 ATP-binding site [chemical binding]; other site 596154008572 Gluconate-6-phosphate binding site [chemical binding]; other site 596154008573 Transcriptional regulators [Transcription]; Region: PurR; COG1609 596154008574 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 596154008575 DNA binding site [nucleotide binding] 596154008576 domain linker motif; other site 596154008577 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 596154008578 putative ligand binding site [chemical binding]; other site 596154008579 putative dimerization interface [polypeptide binding]; other site 596154008580 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 596154008581 Clp amino terminal domain; Region: Clp_N; pfam02861 596154008582 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 596154008583 Walker A motif; other site 596154008584 ATP binding site [chemical binding]; other site 596154008585 Walker B motif; other site 596154008586 arginine finger; other site 596154008587 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 596154008588 Walker A motif; other site 596154008589 ATP binding site [chemical binding]; other site 596154008590 Walker B motif; other site 596154008591 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 596154008592 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 596154008593 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 596154008594 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 596154008595 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 596154008596 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 596154008597 generic binding surface II; other site 596154008598 generic binding surface I; other site 596154008599 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 596154008600 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 596154008601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154008602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154008603 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 596154008604 active site 596154008605 Predicted ATPase [General function prediction only]; Region: COG1485 596154008606 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 596154008607 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154008608 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 596154008609 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 596154008610 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 596154008611 E3 interaction surface; other site 596154008612 lipoyl attachment site [posttranslational modification]; other site 596154008613 e3 binding domain; Region: E3_binding; pfam02817 596154008614 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 596154008615 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 596154008616 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 596154008617 TPP-binding site [chemical binding]; other site 596154008618 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 596154008619 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 596154008620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154008621 NMT1-like family; Region: NMT1_2; cl15260 596154008622 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 596154008623 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 596154008624 Helix-turn-helix domains; Region: HTH; cl00088 596154008625 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 596154008626 putative dimerization interface [polypeptide binding]; other site 596154008627 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 596154008628 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 596154008629 Ligand Binding Site [chemical binding]; other site 596154008630 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 596154008631 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 596154008632 Walker A/P-loop; other site 596154008633 ATP binding site [chemical binding]; other site 596154008634 Q-loop/lid; other site 596154008635 ABC transporter signature motif; other site 596154008636 Walker B; other site 596154008637 D-loop; other site 596154008638 H-loop/switch region; other site 596154008639 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154008640 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 596154008641 Walker A/P-loop; other site 596154008642 ATP binding site [chemical binding]; other site 596154008643 Q-loop/lid; other site 596154008644 ABC transporter signature motif; other site 596154008645 Walker B; other site 596154008646 D-loop; other site 596154008647 H-loop/switch region; other site 596154008648 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154008649 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 596154008650 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 596154008651 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 596154008652 dimer interface [polypeptide binding]; other site 596154008653 conserved gate region; other site 596154008654 putative PBP binding loops; other site 596154008655 ABC-ATPase subunit interface; other site 596154008656 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 596154008657 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 596154008658 dimer interface [polypeptide binding]; other site 596154008659 conserved gate region; other site 596154008660 putative PBP binding loops; other site 596154008661 ABC-ATPase subunit interface; other site 596154008662 Phospholipid methyltransferase; Region: PEMT; cl00763 596154008663 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 596154008664 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 596154008665 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 596154008666 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 596154008667 NAD binding site [chemical binding]; other site 596154008668 homotetramer interface [polypeptide binding]; other site 596154008669 homodimer interface [polypeptide binding]; other site 596154008670 substrate binding site [chemical binding]; other site 596154008671 active site 596154008672 aromatic amino acid exporter; Provisional; Region: PRK11689 596154008673 EamA-like transporter family; Region: EamA; cl01037 596154008674 Protein of unknown function (DUF465); Region: DUF465; cl01070 596154008675 DNA ligase; Provisional; Region: PRK09125 596154008676 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 596154008677 DNA binding site [nucleotide binding] 596154008678 active site 596154008679 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 596154008680 DNA binding site [nucleotide binding] 596154008681 Integral membrane protein TerC family; Region: TerC; cl10468 596154008682 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 596154008683 lysine decarboxylase LdcC; Provisional; Region: PRK15399 596154008684 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 596154008685 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154008686 catalytic residue [active] 596154008687 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 596154008688 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 596154008689 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 596154008690 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 596154008691 Helix-turn-helix domains; Region: HTH; cl00088 596154008692 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 596154008693 dimerization interface [polypeptide binding]; other site 596154008694 substrate binding pocket [chemical binding]; other site 596154008695 thiamine pyrophosphate protein; Validated; Region: PRK08199 596154008696 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 596154008697 PYR/PP interface [polypeptide binding]; other site 596154008698 dimer interface [polypeptide binding]; other site 596154008699 TPP binding site [chemical binding]; other site 596154008700 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 596154008701 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 596154008702 TPP-binding site [chemical binding]; other site 596154008703 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 596154008704 putative active site [active] 596154008705 catalytic site [active] 596154008706 putative transposase OrfB; Reviewed; Region: PHA02517 596154008707 HTH-like domain; Region: HTH_21; pfam13276 596154008708 Integrase core domain; Region: rve; cl01316 596154008709 Integrase core domain; Region: rve_3; cl15866 596154008710 Helix-turn-helix domains; Region: HTH; cl00088 596154008711 Protein of unknown function DUF91; Region: DUF91; cl00709 596154008712 Transposase domain (DUF772); Region: DUF772; cl15789 596154008713 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 596154008714 Transposase domain (DUF772); Region: DUF772; cl15789 596154008715 Transposase domain (DUF772); Region: DUF772; cl15789 596154008716 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 596154008717 active site 596154008718 substrate binding site [chemical binding]; other site 596154008719 Mg2+ binding site [ion binding]; other site 596154008720 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 596154008721 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154008722 Integrase core domain; Region: rve; cl01316 596154008723 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 596154008724 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154008725 Helix-turn-helix domains; Region: HTH; cl00088 596154008726 Domain of unknown function (DUF932); Region: DUF932; cl12129 596154008727 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 596154008728 Short C-terminal domain; Region: SHOCT; cl01373 596154008729 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 596154008730 non-specific DNA binding site [nucleotide binding]; other site 596154008731 salt bridge; other site 596154008732 sequence-specific DNA binding site [nucleotide binding]; other site 596154008733 DNA polymerase II; Reviewed; Region: PRK05762 596154008734 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 596154008735 active site 596154008736 catalytic site [active] 596154008737 substrate binding site [chemical binding]; other site 596154008738 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 596154008739 active site 596154008740 metal-binding site 596154008741 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 596154008742 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154008743 integrase; Provisional; Region: PRK09692 596154008744 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 596154008745 active site 596154008746 Int/Topo IB signature motif; other site 596154008747 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 596154008748 Sel1 repeat; Region: Sel1; cl02723 596154008749 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 596154008750 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154008751 catalytic residue [active] 596154008752 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154008753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008754 NAD(P) binding site [chemical binding]; other site 596154008755 active site 596154008756 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 596154008757 AMP-binding enzyme; Region: AMP-binding; cl15778 596154008758 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154008759 Uncharacterized conserved protein [Function unknown]; Region: COG2128 596154008760 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154008761 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 596154008762 Walker A/P-loop; other site 596154008763 ATP binding site [chemical binding]; other site 596154008764 Q-loop/lid; other site 596154008765 ABC transporter signature motif; other site 596154008766 Walker B; other site 596154008767 D-loop; other site 596154008768 H-loop/switch region; other site 596154008769 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154008770 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 596154008771 Walker A/P-loop; other site 596154008772 ATP binding site [chemical binding]; other site 596154008773 Q-loop/lid; other site 596154008774 ABC transporter signature motif; other site 596154008775 Walker B; other site 596154008776 D-loop; other site 596154008777 H-loop/switch region; other site 596154008778 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 596154008779 TM-ABC transporter signature motif; other site 596154008780 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 596154008781 TM-ABC transporter signature motif; other site 596154008782 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154008783 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 596154008784 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154008785 classical (c) SDRs; Region: SDR_c; cd05233 596154008786 NAD(P) binding site [chemical binding]; other site 596154008787 active site 596154008788 lipid-transfer protein; Provisional; Region: PRK08256 596154008789 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154008790 active site 596154008791 acyl-CoA synthetase; Validated; Region: PRK06188 596154008792 AMP-binding enzyme; Region: AMP-binding; cl15778 596154008793 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154008794 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154008795 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154008796 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 596154008797 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 596154008798 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 596154008799 Predicted membrane protein [Function unknown]; Region: COG2860 596154008800 UPF0126 domain; Region: UPF0126; pfam03458 596154008801 UPF0126 domain; Region: UPF0126; pfam03458 596154008802 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 596154008803 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 596154008804 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 596154008805 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 596154008806 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 596154008807 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 596154008808 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 596154008809 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 596154008810 Active Sites [active] 596154008811 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 596154008812 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 596154008813 Active Sites [active] 596154008814 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 596154008815 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154008816 G1 box; other site 596154008817 GTP/Mg2+ binding site [chemical binding]; other site 596154008818 G2 box; other site 596154008819 Switch I region; other site 596154008820 G3 box; other site 596154008821 Switch II region; other site 596154008822 G4 box; other site 596154008823 G5 box; other site 596154008824 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 596154008825 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 596154008826 Ferredoxin [Energy production and conversion]; Region: COG1146 596154008827 4Fe-4S binding domain; Region: Fer4; cl02805 596154008828 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 596154008829 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 596154008830 Sodium:solute symporter family; Region: SSF; cl00456 596154008831 Bacterial SH3 domain; Region: SH3_3; cl02551 596154008832 Bacterial SH3 domain; Region: SH3_3; cl02551 596154008833 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 596154008834 dimer interface [polypeptide binding]; other site 596154008835 substrate binding site [chemical binding]; other site 596154008836 ATP binding site [chemical binding]; other site 596154008837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008838 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 596154008839 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 596154008840 thiS-thiF/thiG interaction site; other site 596154008841 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 596154008842 ThiS interaction site; other site 596154008843 putative active site [active] 596154008844 tetramer interface [polypeptide binding]; other site 596154008845 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 596154008846 thiamine phosphate binding site [chemical binding]; other site 596154008847 active site 596154008848 pyrophosphate binding site [ion binding]; other site 596154008849 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 596154008850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008851 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154008852 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154008853 enoyl-CoA hydratase; Provisional; Region: PRK07511 596154008854 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 596154008855 substrate binding site [chemical binding]; other site 596154008856 oxyanion hole (OAH) forming residues; other site 596154008857 trimer interface [polypeptide binding]; other site 596154008858 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 596154008859 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 596154008860 ligand binding site [chemical binding]; other site 596154008861 flexible hinge region; other site 596154008862 Helix-turn-helix domains; Region: HTH; cl00088 596154008863 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 596154008864 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 596154008865 putative active site [active] 596154008866 putative substrate binding site [chemical binding]; other site 596154008867 ATP binding site [chemical binding]; other site 596154008868 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154008869 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 596154008870 FAD binding site [chemical binding]; other site 596154008871 substrate binding site [chemical binding]; other site 596154008872 catalytic base [active] 596154008873 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 596154008874 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 596154008875 Proline dehydrogenase; Region: Pro_dh; cl03282 596154008876 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 596154008877 NAD(P) binding site [chemical binding]; other site 596154008878 catalytic residues [active] 596154008879 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 596154008880 Sodium:solute symporter family; Region: SSF; cl00456 596154008881 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154008882 Helix-turn-helix domains; Region: HTH; cl00088 596154008883 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154008884 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 596154008885 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154008886 2-isopropylmalate synthase; Validated; Region: PRK00915 596154008887 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 596154008888 active site 596154008889 catalytic residues [active] 596154008890 metal binding site [ion binding]; metal-binding site 596154008891 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 596154008892 2-isopropylmalate synthase; Validated; Region: PRK03739 596154008893 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 596154008894 active site 596154008895 catalytic residues [active] 596154008896 metal binding site [ion binding]; metal-binding site 596154008897 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 596154008898 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154008899 Helix-turn-helix domains; Region: HTH; cl00088 596154008900 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 596154008901 putative dimerization interface [polypeptide binding]; other site 596154008902 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 596154008903 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154008904 Zn binding site [ion binding]; other site 596154008905 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 596154008906 benzoate transport; Region: 2A0115; TIGR00895 596154008907 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 596154008908 putative substrate translocation pore; other site 596154008909 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 596154008910 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 596154008911 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154008912 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 596154008913 maleylacetoacetate isomerase; Region: maiA; TIGR01262 596154008914 C-terminal domain interface [polypeptide binding]; other site 596154008915 GSH binding site (G-site) [chemical binding]; other site 596154008916 putative dimer interface [polypeptide binding]; other site 596154008917 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 596154008918 dimer interface [polypeptide binding]; other site 596154008919 N-terminal domain interface [polypeptide binding]; other site 596154008920 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 596154008921 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 596154008922 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 596154008923 ketol-acid reductoisomerase; Provisional; Region: PRK05479 596154008924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154008925 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 596154008926 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 596154008927 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 596154008928 putative valine binding site [chemical binding]; other site 596154008929 dimer interface [polypeptide binding]; other site 596154008930 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 596154008931 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 596154008932 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 596154008933 PYR/PP interface [polypeptide binding]; other site 596154008934 dimer interface [polypeptide binding]; other site 596154008935 TPP binding site [chemical binding]; other site 596154008936 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 596154008937 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 596154008938 TPP-binding site [chemical binding]; other site 596154008939 dimer interface [polypeptide binding]; other site 596154008940 RNA polymerase factor sigma-70; Validated; Region: PRK09047 596154008941 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 596154008942 DNA binding residues [nucleotide binding] 596154008943 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 596154008944 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 596154008945 RDD family; Region: RDD; cl00746 596154008946 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 596154008947 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 596154008948 Nitrogen regulatory protein P-II; Region: P-II; cl00412 596154008949 Nitrogen regulatory protein P-II; Region: P-II; smart00938 596154008950 NAD synthetase; Provisional; Region: PRK13981 596154008951 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 596154008952 multimer interface [polypeptide binding]; other site 596154008953 active site 596154008954 catalytic triad [active] 596154008955 protein interface 1 [polypeptide binding]; other site 596154008956 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 596154008957 homodimer interface [polypeptide binding]; other site 596154008958 NAD binding pocket [chemical binding]; other site 596154008959 ATP binding pocket [chemical binding]; other site 596154008960 Mg binding site [ion binding]; other site 596154008961 active-site loop [active] 596154008962 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154008963 Protein of unknown function, DUF482; Region: DUF482; pfam04339 596154008964 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 596154008965 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 596154008966 dimerization interface [polypeptide binding]; other site 596154008967 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154008968 dimer interface [polypeptide binding]; other site 596154008969 putative CheW interface [polypeptide binding]; other site 596154008970 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 596154008971 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 596154008972 dimer interface [polypeptide binding]; other site 596154008973 substrate binding site [chemical binding]; other site 596154008974 metal binding sites [ion binding]; metal-binding site 596154008975 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 596154008976 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 596154008977 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154008978 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 596154008979 NAD(P) binding site [chemical binding]; other site 596154008980 catalytic residues [active] 596154008981 catalytic residues [active] 596154008982 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 596154008983 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 596154008984 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 596154008985 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 596154008986 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 596154008987 FeS/SAM binding site; other site 596154008988 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 596154008989 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 596154008990 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 596154008991 GTP binding site; other site 596154008992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 596154008993 Coenzyme A binding pocket [chemical binding]; other site 596154008994 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 596154008995 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 596154008996 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 596154008997 dimer interface [polypeptide binding]; other site 596154008998 putative functional site; other site 596154008999 putative MPT binding site; other site 596154009000 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 596154009001 catalytic residues [active] 596154009002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154009003 NMT1-like family; Region: NMT1_2; cl15260 596154009004 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154009005 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 596154009006 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 596154009007 substrate binding pocket [chemical binding]; other site 596154009008 membrane-bound complex binding site; other site 596154009009 hinge residues; other site 596154009010 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 596154009011 Helix-turn-helix domains; Region: HTH; cl00088 596154009012 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 596154009013 dimerization interface [polypeptide binding]; other site 596154009014 substrate binding pocket [chemical binding]; other site 596154009015 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154009016 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154009017 aspartate aminotransferase; Provisional; Region: PRK05764 596154009018 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 596154009019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154009020 homodimer interface [polypeptide binding]; other site 596154009021 catalytic residue [active] 596154009022 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 596154009023 RNA/DNA hybrid binding site [nucleotide binding]; other site 596154009024 active site 596154009025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009026 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 596154009027 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154009028 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 596154009029 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 596154009030 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 596154009031 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154009032 catalytic residue [active] 596154009033 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 596154009034 putative peptidoglycan binding site; other site 596154009035 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 596154009036 NMT1-like family; Region: NMT1_2; cl15260 596154009037 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 596154009038 DNA binding site [nucleotide binding] 596154009039 Int/Topo IB signature motif; other site 596154009040 active site 596154009041 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 596154009042 Helix-turn-helix domain; Region: HTH_39; pfam14090 596154009043 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 596154009044 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 596154009045 putative ATP binding site [chemical binding]; other site 596154009046 putative substrate interface [chemical binding]; other site 596154009047 tol-pal system protein YbgF; Provisional; Region: PRK10803 596154009048 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 596154009049 Tetratricopeptide repeat; Region: TPR_6; pfam13174 596154009050 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 596154009051 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154009052 ligand binding site [chemical binding]; other site 596154009053 translocation protein TolB; Provisional; Region: tolB; PRK02889 596154009054 TolB amino-terminal domain; Region: TolB_N; cl00639 596154009055 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 596154009056 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 596154009057 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 596154009058 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 596154009059 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 596154009060 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 596154009061 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 596154009062 Walker A/P-loop; other site 596154009063 ATP binding site [chemical binding]; other site 596154009064 Q-loop/lid; other site 596154009065 ABC transporter signature motif; other site 596154009066 Walker B; other site 596154009067 D-loop; other site 596154009068 H-loop/switch region; other site 596154009069 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 596154009070 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154009071 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154009072 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154009073 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 596154009074 carboxyltransferase (CT) interaction site; other site 596154009075 biotinylation site [posttranslational modification]; other site 596154009076 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 596154009077 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 596154009078 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 596154009079 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 596154009080 LamB/YcsF family; Region: LamB_YcsF; cl00664 596154009081 benzoate transport; Region: 2A0115; TIGR00895 596154009082 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 596154009083 putative substrate translocation pore; other site 596154009084 Transcriptional regulators [Transcription]; Region: GntR; COG1802 596154009085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154009086 DNA-binding site [nucleotide binding]; DNA binding site 596154009087 FCD domain; Region: FCD; cl11656 596154009088 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 596154009089 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 596154009090 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 596154009091 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 596154009092 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 596154009093 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 596154009094 active site 596154009095 PilZ domain; Region: PilZ; cl01260 596154009096 DNA polymerase III subunit delta'; Validated; Region: PRK06964 596154009097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009098 thymidylate kinase; Validated; Region: tmk; PRK00698 596154009099 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 596154009100 TMP-binding site; other site 596154009101 ATP-binding site [chemical binding]; other site 596154009102 YceG-like family; Region: YceG; pfam02618 596154009103 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 596154009104 dimerization interface [polypeptide binding]; other site 596154009105 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 596154009106 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 596154009107 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 596154009108 nucleoside/Zn binding site; other site 596154009109 dimer interface [polypeptide binding]; other site 596154009110 catalytic motif [active] 596154009111 putative cyanate transporter; Provisional; Region: cynX; PRK09705 596154009112 hypothetical protein; Provisional; Region: PRK06149 596154009113 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 596154009114 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 596154009115 ATP binding site [chemical binding]; other site 596154009116 Mg2+ binding site [ion binding]; other site 596154009117 G-X-G motif; other site 596154009118 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 596154009119 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 596154009120 active site 596154009121 phosphorylation site [posttranslational modification] 596154009122 intermolecular recognition site; other site 596154009123 dimerization interface [polypeptide binding]; other site 596154009124 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 596154009125 DNA binding residues [nucleotide binding] 596154009126 dimerization interface [polypeptide binding]; other site 596154009127 Domain of unknown function (DUF336); Region: DUF336; cl01249 596154009128 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 596154009129 active site 596154009130 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154009131 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 596154009132 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154009133 HDOD domain; Region: HDOD; pfam08668 596154009134 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154009135 Helix-turn-helix domains; Region: HTH; cl00088 596154009136 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154009137 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154009138 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 596154009139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154009140 NMT1-like family; Region: NMT1_2; cl15260 596154009141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154009142 NMT1-like family; Region: NMT1_2; cl15260 596154009143 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154009144 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154009145 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 596154009146 active site 596154009147 oxalacetate binding site [chemical binding]; other site 596154009148 citrylCoA binding site [chemical binding]; other site 596154009149 coenzyme A binding site [chemical binding]; other site 596154009150 catalytic triad [active] 596154009151 Transcriptional regulators [Transcription]; Region: PurR; COG1609 596154009152 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 596154009153 DNA binding site [nucleotide binding] 596154009154 domain linker motif; other site 596154009155 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_5; cd06281 596154009156 putative dimerization interface [polypeptide binding]; other site 596154009157 putative ligand binding site [chemical binding]; other site 596154009158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154009159 NMT1-like family; Region: NMT1_2; cl15260 596154009160 acyl-CoA synthetase; Validated; Region: PRK06188 596154009161 AMP-binding enzyme; Region: AMP-binding; cl15778 596154009162 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154009163 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154009164 classical (c) SDRs; Region: SDR_c; cd05233 596154009165 NAD(P) binding site [chemical binding]; other site 596154009166 active site 596154009167 NMT1-like family; Region: NMT1_2; cl15260 596154009168 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 596154009169 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154009170 active site 596154009171 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 596154009172 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154009173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154009174 NMT1-like family; Region: NMT1_2; cl15260 596154009175 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 596154009176 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 596154009177 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 596154009178 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 596154009179 RNA binding site [nucleotide binding]; other site 596154009180 Protein of unknown function DUF72; Region: DUF72; cl00777 596154009181 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 596154009182 ligand binding site [chemical binding]; other site 596154009183 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 596154009184 putative active site pocket [active] 596154009185 dimerization interface [polypeptide binding]; other site 596154009186 putative catalytic residue [active] 596154009187 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 596154009188 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 596154009189 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 596154009190 Membrane transport protein; Region: Mem_trans; cl09117 596154009191 Chromate transporter; Region: Chromate_transp; pfam02417 596154009192 Chromate transporter; Region: Chromate_transp; pfam02417 596154009193 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 596154009194 N-terminal plug; other site 596154009195 ligand-binding site [chemical binding]; other site 596154009196 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 596154009197 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154009198 Helix-turn-helix domains; Region: HTH; cl00088 596154009199 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 596154009200 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 596154009201 S-adenosylmethionine binding site [chemical binding]; other site 596154009202 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 596154009203 active site residue [active] 596154009204 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 596154009205 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 596154009206 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 596154009207 DNA binding site [nucleotide binding] 596154009208 Int/Topo IB signature motif; other site 596154009209 active site 596154009210 EamA-like transporter family; Region: EamA; cl01037 596154009211 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 596154009212 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 596154009213 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154009214 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154009215 active site 596154009216 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 596154009217 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 596154009218 dimer interface [polypeptide binding]; other site 596154009219 conserved gate region; other site 596154009220 putative PBP binding loops; other site 596154009221 ABC-ATPase subunit interface; other site 596154009222 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 596154009223 dimer interface [polypeptide binding]; other site 596154009224 conserved gate region; other site 596154009225 putative PBP binding loops; other site 596154009226 ABC-ATPase subunit interface; other site 596154009227 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 596154009228 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 596154009229 substrate binding pocket [chemical binding]; other site 596154009230 membrane-bound complex binding site; other site 596154009231 hinge residues; other site 596154009232 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 596154009233 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 596154009234 dimer interface [polypeptide binding]; other site 596154009235 active site 596154009236 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 596154009237 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 596154009238 substrate binding site [chemical binding]; other site 596154009239 oxyanion hole (OAH) forming residues; other site 596154009240 trimer interface [polypeptide binding]; other site 596154009241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009242 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154009243 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154009244 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154009245 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 596154009246 Walker A/P-loop; other site 596154009247 ATP binding site [chemical binding]; other site 596154009248 Q-loop/lid; other site 596154009249 ABC transporter signature motif; other site 596154009250 Walker B; other site 596154009251 D-loop; other site 596154009252 H-loop/switch region; other site 596154009253 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154009254 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 596154009255 Walker A/P-loop; other site 596154009256 ATP binding site [chemical binding]; other site 596154009257 Q-loop/lid; other site 596154009258 ABC transporter signature motif; other site 596154009259 Walker B; other site 596154009260 D-loop; other site 596154009261 H-loop/switch region; other site 596154009262 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 596154009263 TM-ABC transporter signature motif; other site 596154009264 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 596154009265 TM-ABC transporter signature motif; other site 596154009266 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154009267 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 596154009268 putative ligand binding site [chemical binding]; other site 596154009269 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 596154009270 AMP-binding enzyme; Region: AMP-binding; cl15778 596154009271 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 596154009272 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 596154009273 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 596154009274 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 596154009275 Intracellular septation protein A; Region: IspA; cl01098 596154009276 BolA-like protein; Region: BolA; cl00386 596154009277 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 596154009278 PPIC-type PPIASE domain; Region: Rotamase; cl08278 596154009279 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 596154009280 tetratricopeptide repeat protein; Provisional; Region: PRK11788 596154009281 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 596154009282 binding surface 596154009283 TPR motif; other site 596154009284 Protein of unknown function, DUF655; Region: DUF655; pfam04919 596154009285 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 596154009286 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 596154009287 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 596154009288 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 596154009289 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 596154009290 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 596154009291 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 596154009292 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 596154009293 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 596154009294 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 596154009295 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 596154009296 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 596154009297 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 596154009298 putative active site [active] 596154009299 Zn binding site [ion binding]; other site 596154009300 CrcB-like protein; Region: CRCB; cl09114 596154009301 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 596154009302 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154009303 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 596154009304 putative substrate translocation pore; other site 596154009305 RmuC family; Region: RmuC; pfam02646 596154009306 glyoxylate reductase; Reviewed; Region: PRK13243 596154009307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009308 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 596154009309 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 596154009310 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 596154009311 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 596154009312 active site 596154009313 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 596154009314 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 596154009315 active site 596154009316 Phasin protein; Region: Phasin_2; cl11491 596154009317 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 596154009318 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 596154009319 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 596154009320 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 596154009321 NAD binding site [chemical binding]; other site 596154009322 homotetramer interface [polypeptide binding]; other site 596154009323 homodimer interface [polypeptide binding]; other site 596154009324 active site 596154009325 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 596154009326 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 596154009327 active site 596154009328 Int/Topo IB signature motif; other site 596154009329 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 596154009330 PRTRC system protein D; Region: PRTRC_D; TIGR03739 596154009331 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 596154009332 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 596154009333 H-NS histone family; Region: Histone_HNS; pfam00816 596154009334 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 596154009335 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 596154009336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009337 ATP binding site [chemical binding]; other site 596154009338 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 596154009339 PRTRC system protein A; Region: PRTRC_A; TIGR03735 596154009340 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 596154009341 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 596154009342 PRTRC system protein F; Region: PRTRC_F; TIGR03742 596154009343 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 596154009344 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 596154009345 PRTRC system protein E; Region: PRTRC_E; TIGR03741 596154009346 ParB-like nuclease domain; Region: ParBc; cl02129 596154009347 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 596154009348 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 596154009349 AAA domain; Region: AAA_21; pfam13304 596154009350 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 596154009351 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 596154009352 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 596154009353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009355 DEAD-like helicases superfamily; Region: DEXDc; smart00487 596154009356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009358 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 596154009359 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 596154009360 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009361 Walker A/P-loop; other site 596154009362 ATP binding site [chemical binding]; other site 596154009363 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 596154009364 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 596154009365 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 596154009366 active site 596154009367 metal binding site [ion binding]; metal-binding site 596154009368 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 596154009369 Int/Topo IB signature motif; other site 596154009370 active site 596154009371 catalytic residues [active] 596154009372 DNA binding site [nucleotide binding] 596154009373 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 596154009374 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154009375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 596154009376 CHC2 zinc finger; Region: zf-CHC2; cl15369 596154009377 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 596154009378 active site 596154009379 metal binding site [ion binding]; metal-binding site 596154009380 interdomain interaction site; other site 596154009381 Domain of unknown function (DUF932); Region: DUF932; cl12129 596154009382 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 596154009383 Catalytic site [active] 596154009384 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 596154009385 Putative helicase; Region: TraI_2; pfam07514 596154009386 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 596154009387 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 596154009388 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009389 Walker A motif; other site 596154009390 ATP binding site [chemical binding]; other site 596154009391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009392 Walker B motif; other site 596154009393 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 596154009394 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 596154009395 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 596154009396 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154009397 catalytic residue [active] 596154009398 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 596154009399 TraL protein; Region: TraL; cl06278 596154009400 TraE protein; Region: TraE; cl05060 596154009401 TraK protein; Region: TraK; pfam06586 596154009402 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 596154009403 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 596154009404 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 596154009405 dimerization domain [polypeptide binding]; other site 596154009406 dimer interface [polypeptide binding]; other site 596154009407 catalytic residues [active] 596154009408 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 596154009409 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 596154009410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009411 Walker A motif; other site 596154009412 ATP binding site [chemical binding]; other site 596154009413 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 596154009414 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 596154009415 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 596154009416 TraU protein; Region: TraU; cl06067 596154009417 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 596154009418 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154009419 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154009420 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154009421 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154009422 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 596154009423 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 596154009424 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 596154009425 Int/Topo IB signature motif; other site 596154009426 active site 596154009427 DNA binding site [nucleotide binding] 596154009428 Transposase domain (DUF772); Region: DUF772; cl15789 596154009429 Helix-turn-helix domains; Region: HTH; cl00088 596154009430 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 596154009431 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 596154009432 metal-binding site [ion binding] 596154009433 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154009434 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154009435 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154009436 LemA family; Region: LemA; cl00742 596154009437 Repair protein; Region: Repair_PSII; cl01535 596154009438 Repair protein; Region: Repair_PSII; cl01535 596154009439 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 596154009440 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154009441 Beta-Casp domain; Region: Beta-Casp; cl12567 596154009442 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 596154009443 thymidine phosphorylase; Provisional; Region: PRK04350 596154009444 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 596154009445 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 596154009446 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 596154009447 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 596154009448 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 596154009449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154009450 active site 596154009451 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 596154009452 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 596154009453 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 596154009454 nucleotide binding site [chemical binding]; other site 596154009455 putative mercuric reductase; Provisional; Region: PRK13748 596154009456 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 596154009457 metal-binding site [ion binding] 596154009458 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154009459 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 596154009460 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 596154009461 metal-binding site [ion binding] 596154009462 MerT mercuric transport protein; Region: MerT; cl03578 596154009463 putative transcriptional regulator MerR; Provisional; Region: PRK13752 596154009464 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 596154009465 DNA binding residues [nucleotide binding] 596154009466 dimer interface [polypeptide binding]; other site 596154009467 mercury binding site [ion binding]; other site 596154009468 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 596154009469 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 596154009470 Helix-turn-helix domains; Region: HTH; cl00088 596154009471 putative transposase OrfB; Reviewed; Region: PHA02517 596154009472 HTH-like domain; Region: HTH_21; pfam13276 596154009473 Integrase core domain; Region: rve; cl01316 596154009474 Integrase core domain; Region: rve_3; cl15866 596154009475 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 596154009476 dimerization interface [polypeptide binding]; other site 596154009477 putative DNA binding site [nucleotide binding]; other site 596154009478 putative Zn2+ binding site [ion binding]; other site 596154009479 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 596154009480 active site residue [active] 596154009481 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 596154009482 S-adenosylmethionine binding site [chemical binding]; other site 596154009483 DsrE/DsrF-like family; Region: DrsE; cl00672 596154009484 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 596154009485 S-adenosylmethionine binding site [chemical binding]; other site 596154009486 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 596154009487 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 596154009488 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 596154009489 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 596154009490 Nitrogen regulatory protein P-II; Region: P-II; cl00412 596154009491 Nitrogen regulatory protein P-II; Region: P-II; smart00938 596154009492 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 596154009493 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 596154009494 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154009495 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154009496 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 596154009497 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 596154009498 active site 596154009499 phosphorylation site [posttranslational modification] 596154009500 intermolecular recognition site; other site 596154009501 dimerization interface [polypeptide binding]; other site 596154009502 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 596154009503 DNA binding site [nucleotide binding] 596154009504 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 596154009505 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 596154009506 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 596154009507 dimer interface [polypeptide binding]; other site 596154009508 phosphorylation site [posttranslational modification] 596154009509 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 596154009510 ATP binding site [chemical binding]; other site 596154009511 Mg2+ binding site [ion binding]; other site 596154009512 G-X-G motif; other site 596154009513 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 596154009514 EamA-like transporter family; Region: EamA; cl01037 596154009515 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 596154009516 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 596154009517 Winged helix-turn helix; Region: HTH_29; pfam13551 596154009518 Helix-turn-helix domains; Region: HTH; cl00088 596154009519 Helix-turn-helix domains; Region: HTH; cl00088 596154009520 Integrase core domain; Region: rve; cl01316 596154009521 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 596154009522 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 596154009523 active site 596154009524 HIGH motif; other site 596154009525 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 596154009526 active site 596154009527 KMSKS motif; other site 596154009528 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 596154009529 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 596154009530 homodimer interface [polypeptide binding]; other site 596154009531 substrate-cofactor binding pocket; other site 596154009532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154009533 catalytic residue [active] 596154009534 amidophosphoribosyltransferase; Provisional; Region: PRK09246 596154009535 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 596154009536 active site 596154009537 tetramer interface [polypeptide binding]; other site 596154009538 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154009539 active site 596154009540 Colicin V production protein; Region: Colicin_V; cl00567 596154009541 Sporulation related domain; Region: SPOR; cl10051 596154009542 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 596154009543 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 596154009544 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 596154009545 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 596154009546 ArsC family; Region: ArsC; pfam03960 596154009547 putative catalytic residues [active] 596154009548 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 596154009549 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 596154009550 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 596154009551 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 596154009552 Ligand Binding Site [chemical binding]; other site 596154009553 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 596154009554 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 596154009555 Walker A motif; other site 596154009556 ATP binding site [chemical binding]; other site 596154009557 Walker B motif; other site 596154009558 arginine finger; other site 596154009559 Helix-turn-helix domains; Region: HTH; cl00088 596154009560 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 596154009561 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 596154009562 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 596154009563 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 596154009564 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 596154009565 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 596154009566 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 596154009567 Ligand Binding Site [chemical binding]; other site 596154009568 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 596154009569 SPW repeat; Region: SPW; pfam03779 596154009570 SPW repeat; Region: SPW; pfam03779 596154009571 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 596154009572 FAD binding domain; Region: FAD_binding_4; pfam01565 596154009573 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 596154009574 Protein of unknown function (DUF520); Region: DUF520; cl00723 596154009575 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 596154009576 catalytic motif [active] 596154009577 Catalytic residue [active] 596154009578 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 596154009579 Zn2+ binding site [ion binding]; other site 596154009580 Mg2+ binding site [ion binding]; other site 596154009581 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 596154009582 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 596154009583 putative deacylase active site [active] 596154009584 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 596154009585 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 596154009586 active site 596154009587 catalytic tetrad [active] 596154009588 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 596154009589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009590 Walker A/P-loop; other site 596154009591 ATP binding site [chemical binding]; other site 596154009592 Q-loop/lid; other site 596154009593 ABC transporter signature motif; other site 596154009594 Walker B; other site 596154009595 D-loop; other site 596154009596 H-loop/switch region; other site 596154009597 TOBE domain; Region: TOBE_2; cl01440 596154009598 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 596154009599 dimer interface [polypeptide binding]; other site 596154009600 conserved gate region; other site 596154009601 putative PBP binding loops; other site 596154009602 ABC-ATPase subunit interface; other site 596154009603 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 596154009604 dimer interface [polypeptide binding]; other site 596154009605 conserved gate region; other site 596154009606 putative PBP binding loops; other site 596154009607 ABC-ATPase subunit interface; other site 596154009608 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 596154009609 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 596154009610 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154009611 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 596154009612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009613 peptide chain release factor 2; Validated; Region: prfB; PRK00578 596154009614 RF-1 domain; Region: RF-1; cl02875 596154009615 RF-1 domain; Region: RF-1; cl02875 596154009616 aminopeptidase N; Provisional; Region: pepN; PRK14015 596154009617 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 596154009618 active site 596154009619 Zn binding site [ion binding]; other site 596154009620 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 596154009621 AMP binding site [chemical binding]; other site 596154009622 metal binding site [ion binding]; metal-binding site 596154009623 active site 596154009624 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 596154009625 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 596154009626 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 596154009627 non-specific DNA binding site [nucleotide binding]; other site 596154009628 salt bridge; other site 596154009629 sequence-specific DNA binding site [nucleotide binding]; other site 596154009630 Terminase small subunit; Region: Terminase_2; cl01513 596154009631 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 596154009632 AAA domain; Region: AAA_25; pfam13481 596154009633 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009634 Walker A motif; other site 596154009635 ATP binding site [chemical binding]; other site 596154009636 Walker B motif; other site 596154009637 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154009638 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 596154009639 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 596154009640 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 596154009641 DNA binding site [nucleotide binding] 596154009642 Int/Topo IB signature motif; other site 596154009643 active site 596154009644 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 596154009645 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 596154009646 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 596154009647 RNA/DNA hybrid binding site [nucleotide binding]; other site 596154009648 active site 596154009649 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 596154009650 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 596154009651 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 596154009652 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 596154009653 active site 596154009654 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 596154009655 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 596154009656 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 596154009657 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 596154009658 trimer interface [polypeptide binding]; other site 596154009659 active site 596154009660 UDP-GlcNAc binding site [chemical binding]; other site 596154009661 lipid binding site [chemical binding]; lipid-binding site 596154009662 periplasmic chaperone; Provisional; Region: PRK10780 596154009663 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 596154009664 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 596154009665 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 596154009666 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 596154009667 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 596154009668 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 596154009669 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 596154009670 Surface antigen; Region: Bac_surface_Ag; cl03097 596154009671 zinc metallopeptidase RseP; Provisional; Region: PRK10779 596154009672 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 596154009673 active site 596154009674 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 596154009675 protein binding site [polypeptide binding]; other site 596154009676 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 596154009677 putative substrate binding region [chemical binding]; other site 596154009678 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 596154009679 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 596154009680 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 596154009681 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 596154009682 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 596154009683 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 596154009684 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 596154009685 catalytic residue [active] 596154009686 putative FPP diphosphate binding site; other site 596154009687 putative FPP binding hydrophobic cleft; other site 596154009688 dimer interface [polypeptide binding]; other site 596154009689 putative IPP diphosphate binding site; other site 596154009690 ribosome recycling factor; Reviewed; Region: frr; PRK00083 596154009691 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 596154009692 hinge region; other site 596154009693 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 596154009694 putative nucleotide binding site [chemical binding]; other site 596154009695 uridine monophosphate binding site [chemical binding]; other site 596154009696 homohexameric interface [polypeptide binding]; other site 596154009697 elongation factor Ts; Provisional; Region: tsf; PRK09377 596154009698 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 596154009699 Elongation factor TS; Region: EF_TS; pfam00889 596154009700 Elongation factor TS; Region: EF_TS; pfam00889 596154009701 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 596154009702 rRNA interaction site [nucleotide binding]; other site 596154009703 S8 interaction site; other site 596154009704 putative laminin-1 binding site; other site 596154009705 amidase; Provisional; Region: PRK07056 596154009706 Amidase; Region: Amidase; cl11426 596154009707 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 596154009708 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 596154009709 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 596154009710 tetramer interface [polypeptide binding]; other site 596154009711 active site 596154009712 Mg2+/Mn2+ binding site [ion binding]; other site 596154009713 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 596154009714 mce related protein; Region: MCE; pfam02470 596154009715 Permease; Region: Permease; cl00510 596154009716 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 596154009717 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 596154009718 DNA binding residues [nucleotide binding] 596154009719 dimer interface [polypeptide binding]; other site 596154009720 putative metal binding site [ion binding]; other site 596154009721 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 596154009722 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154009723 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154009724 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 596154009725 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154009726 Protein of unknown function, DUF; Region: DUF411; cl01142 596154009727 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 596154009728 putative active site pocket [active] 596154009729 cleavage site 596154009730 NMT1-like family; Region: NMT1_2; cl15260 596154009731 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 596154009732 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009733 Walker A/P-loop; other site 596154009734 ATP binding site [chemical binding]; other site 596154009735 Q-loop/lid; other site 596154009736 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 596154009737 ABC transporter; Region: ABC_tran_2; pfam12848 596154009738 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 596154009739 helicase 45; Provisional; Region: PTZ00424 596154009740 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 596154009741 ATP binding site [chemical binding]; other site 596154009742 Mg++ binding site [ion binding]; other site 596154009743 motif III; other site 596154009744 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 596154009745 nucleotide binding region [chemical binding]; other site 596154009746 ATP-binding site [chemical binding]; other site 596154009747 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 596154009748 active site 596154009749 Zn binding site [ion binding]; other site 596154009750 LrgB-like family; Region: LrgB; cl00596 596154009751 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 596154009752 Helix-turn-helix domains; Region: HTH; cl00088 596154009753 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 596154009754 dimerization interface [polypeptide binding]; other site 596154009755 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 596154009756 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154009757 FAD binding site [chemical binding]; other site 596154009758 substrate binding pocket [chemical binding]; other site 596154009759 catalytic base [active] 596154009760 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154009761 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154009762 NMT1-like family; Region: NMT1_2; cl15260 596154009763 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 596154009764 NADH(P)-binding; Region: NAD_binding_10; pfam13460 596154009765 putative NAD(P) binding site [chemical binding]; other site 596154009766 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 596154009767 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 596154009768 catalytic loop [active] 596154009769 iron binding site [ion binding]; other site 596154009770 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 596154009771 FAD binding pocket [chemical binding]; other site 596154009772 FAD binding motif [chemical binding]; other site 596154009773 phosphate binding motif [ion binding]; other site 596154009774 beta-alpha-beta structure motif; other site 596154009775 NAD binding pocket [chemical binding]; other site 596154009776 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 596154009777 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 596154009778 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154009779 catalytic residue [active] 596154009780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154009781 Helix-turn-helix domains; Region: HTH; cl00088 596154009782 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 596154009783 putative dimerization interface [polypeptide binding]; other site 596154009784 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 596154009785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154009786 NMT1-like family; Region: NMT1_2; cl15260 596154009787 NMT1-like family; Region: NMT1_2; cl15260 596154009788 YdjC-like protein; Region: YdjC; cl01344 596154009789 GtrA-like protein; Region: GtrA; cl00971 596154009790 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 596154009791 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 596154009792 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 596154009793 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 596154009794 Ligand binding site; other site 596154009795 Putative Catalytic site; other site 596154009796 DXD motif; other site 596154009797 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 596154009798 catalytic center binding site [active] 596154009799 ATP binding site [chemical binding]; other site 596154009800 poly(A) polymerase; Region: pcnB; TIGR01942 596154009801 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 596154009802 active site 596154009803 NTP binding site [chemical binding]; other site 596154009804 metal binding triad [ion binding]; metal-binding site 596154009805 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 596154009806 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 596154009807 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 596154009808 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154009809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009810 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 596154009811 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 596154009812 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 596154009813 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 596154009814 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 596154009815 dimerization interface [polypeptide binding]; other site 596154009816 putative ATP binding site [chemical binding]; other site 596154009817 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 596154009818 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 596154009819 Ligand Binding Site [chemical binding]; other site 596154009820 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 596154009821 Tetratricopeptide repeat; Region: TPR_9; pfam13371 596154009822 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 596154009823 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 596154009824 Protein of unknown function DUF45; Region: DUF45; cl00636 596154009825 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 596154009826 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154009827 Integrase core domain; Region: rve; cl01316 596154009828 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 596154009829 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154009830 Helix-turn-helix domains; Region: HTH; cl00088 596154009831 putative transposase OrfB; Reviewed; Region: PHA02517 596154009832 HTH-like domain; Region: HTH_21; pfam13276 596154009833 Integrase core domain; Region: rve; cl01316 596154009834 Integrase core domain; Region: rve_3; cl15866 596154009835 Helix-turn-helix domains; Region: HTH; cl00088 596154009836 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 596154009837 trimer interface [polypeptide binding]; other site 596154009838 eyelet of channel; other site 596154009839 transposase/IS protein; Provisional; Region: PRK09183 596154009840 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 596154009841 Walker A motif; other site 596154009842 ATP binding site [chemical binding]; other site 596154009843 Walker B motif; other site 596154009844 arginine finger; other site 596154009845 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154009846 Helix-turn-helix domains; Region: HTH; cl00088 596154009847 Integrase core domain; Region: rve; cl01316 596154009848 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154009849 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 596154009850 acetylornithine aminotransferase; Provisional; Region: PRK02627 596154009851 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 596154009852 inhibitor-cofactor binding pocket; inhibition site 596154009853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154009854 catalytic residue [active] 596154009855 ornithine carbamoyltransferase; Provisional; Region: PRK00779 596154009856 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 596154009857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009858 Protein of unknown function, DUF488; Region: DUF488; cl01246 596154009859 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 596154009860 Flagellin N-methylase; Region: FliB; cl00497 596154009861 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 596154009862 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 596154009863 G1 box; other site 596154009864 GTP/Mg2+ binding site [chemical binding]; other site 596154009865 Switch I region; other site 596154009866 G2 box; other site 596154009867 G3 box; other site 596154009868 Switch II region; other site 596154009869 G4 box; other site 596154009870 G5 box; other site 596154009871 Nucleoside recognition; Region: Gate; cl00486 596154009872 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 596154009873 Nucleoside recognition; Region: Gate; cl00486 596154009874 FeoA domain; Region: FeoA; cl00838 596154009875 Flagellin N-methylase; Region: FliB; cl00497 596154009876 Putative cyclase; Region: Cyclase; cl00814 596154009877 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 596154009878 Helix-turn-helix domains; Region: HTH; cl00088 596154009879 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 596154009880 dimerization interface [polypeptide binding]; other site 596154009881 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 596154009882 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 596154009883 dimer interface [polypeptide binding]; other site 596154009884 conserved gate region; other site 596154009885 putative PBP binding loops; other site 596154009886 ABC-ATPase subunit interface; other site 596154009887 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 596154009888 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 596154009889 dimer interface [polypeptide binding]; other site 596154009890 conserved gate region; other site 596154009891 putative PBP binding loops; other site 596154009892 ABC-ATPase subunit interface; other site 596154009893 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 596154009894 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 596154009895 Walker A/P-loop; other site 596154009896 ATP binding site [chemical binding]; other site 596154009897 Q-loop/lid; other site 596154009898 ABC transporter signature motif; other site 596154009899 Walker B; other site 596154009900 D-loop; other site 596154009901 H-loop/switch region; other site 596154009902 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154009903 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 596154009904 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 596154009905 Walker A/P-loop; other site 596154009906 ATP binding site [chemical binding]; other site 596154009907 Q-loop/lid; other site 596154009908 ABC transporter signature motif; other site 596154009909 Walker B; other site 596154009910 D-loop; other site 596154009911 H-loop/switch region; other site 596154009912 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154009913 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 596154009914 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 596154009915 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 596154009916 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 596154009917 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 596154009918 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 596154009919 active site 596154009920 purine riboside binding site [chemical binding]; other site 596154009921 Cupin domain; Region: Cupin_2; cl09118 596154009922 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 596154009923 Helix-turn-helix domains; Region: HTH; cl00088 596154009924 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154009925 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 596154009926 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 596154009927 substrate binding pocket [chemical binding]; other site 596154009928 membrane-bound complex binding site; other site 596154009929 hinge residues; other site 596154009930 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 596154009931 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 596154009932 dimer interface [polypeptide binding]; other site 596154009933 conserved gate region; other site 596154009934 putative PBP binding loops; other site 596154009935 ABC-ATPase subunit interface; other site 596154009936 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 596154009937 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 596154009938 Walker A/P-loop; other site 596154009939 ATP binding site [chemical binding]; other site 596154009940 Q-loop/lid; other site 596154009941 ABC transporter signature motif; other site 596154009942 Walker B; other site 596154009943 D-loop; other site 596154009944 H-loop/switch region; other site 596154009945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009946 FAD dependent oxidoreductase; Region: DAO; pfam01266 596154009947 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 596154009948 putative ligand binding site [chemical binding]; other site 596154009949 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 596154009950 putative ligand binding site [chemical binding]; other site 596154009951 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 596154009952 TM-ABC transporter signature motif; other site 596154009953 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 596154009954 TM-ABC transporter signature motif; other site 596154009955 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 596154009956 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 596154009957 Walker A/P-loop; other site 596154009958 ATP binding site [chemical binding]; other site 596154009959 Q-loop/lid; other site 596154009960 ABC transporter signature motif; other site 596154009961 Walker B; other site 596154009962 D-loop; other site 596154009963 H-loop/switch region; other site 596154009964 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 596154009965 Helix-turn-helix domains; Region: HTH; cl00088 596154009966 Winged helix-turn helix; Region: HTH_29; pfam13551 596154009967 Integrase core domain; Region: rve; cl01316 596154009968 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 596154009969 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; cl00047 596154009970 Helix-turn-helix domains; Region: HTH; cl00088 596154009971 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 596154009972 trimer interface [polypeptide binding]; other site 596154009973 eyelet of channel; other site 596154009974 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 596154009975 HIT family signature motif; other site 596154009976 catalytic residue [active] 596154009977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154009978 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 596154009979 putative substrate translocation pore; other site 596154009980 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154009981 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 596154009982 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 596154009983 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 596154009984 Walker A/P-loop; other site 596154009985 ATP binding site [chemical binding]; other site 596154009986 Q-loop/lid; other site 596154009987 ABC transporter signature motif; other site 596154009988 Walker B; other site 596154009989 D-loop; other site 596154009990 H-loop/switch region; other site 596154009991 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 596154009992 putative dimer interface [polypeptide binding]; other site 596154009993 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 596154009994 FtsX-like permease family; Region: FtsX; cl15850 596154009995 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 596154009996 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 596154009997 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154009998 catalytic residue [active] 596154009999 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 596154010000 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 596154010001 TM-ABC transporter signature motif; other site 596154010002 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 596154010003 TM-ABC transporter signature motif; other site 596154010004 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154010005 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 596154010006 putative ligand binding site [chemical binding]; other site 596154010007 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154010008 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 596154010009 putative ligand binding site [chemical binding]; other site 596154010010 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154010011 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 596154010012 Walker A/P-loop; other site 596154010013 ATP binding site [chemical binding]; other site 596154010014 Q-loop/lid; other site 596154010015 ABC transporter signature motif; other site 596154010016 Walker B; other site 596154010017 D-loop; other site 596154010018 H-loop/switch region; other site 596154010019 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154010020 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 596154010021 Walker A/P-loop; other site 596154010022 ATP binding site [chemical binding]; other site 596154010023 Q-loop/lid; other site 596154010024 ABC transporter signature motif; other site 596154010025 Walker B; other site 596154010026 D-loop; other site 596154010027 H-loop/switch region; other site 596154010028 Helix-turn-helix domains; Region: HTH; cl00088 596154010029 TOBE domain; Region: TOBE_2; cl01440 596154010030 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 596154010031 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 596154010032 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 596154010033 putative PBP binding loops; other site 596154010034 dimer interface [polypeptide binding]; other site 596154010035 ABC-ATPase subunit interface; other site 596154010036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154010037 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 596154010038 Walker A/P-loop; other site 596154010039 ATP binding site [chemical binding]; other site 596154010040 Q-loop/lid; other site 596154010041 ABC transporter signature motif; other site 596154010042 Walker B; other site 596154010043 D-loop; other site 596154010044 H-loop/switch region; other site 596154010045 TOBE domain; Region: TOBE_2; cl01440 596154010046 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 596154010047 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 596154010048 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 596154010049 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 596154010050 Walker A/P-loop; other site 596154010051 ATP binding site [chemical binding]; other site 596154010052 Q-loop/lid; other site 596154010053 ABC transporter signature motif; other site 596154010054 Walker B; other site 596154010055 D-loop; other site 596154010056 H-loop/switch region; other site 596154010057 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 596154010058 Helix-turn-helix domains; Region: HTH; cl00088 596154010059 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 596154010060 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 596154010061 putative active site [active] 596154010062 catalytic site [active] 596154010063 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 596154010064 PLD-like domain; Region: PLDc_2; pfam13091 596154010065 putative active site [active] 596154010066 catalytic site [active] 596154010067 acyl-CoA synthetase; Validated; Region: PRK08162 596154010068 AMP-binding enzyme; Region: AMP-binding; cl15778 596154010069 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154010070 DNA primase, catalytic core; Region: dnaG; TIGR01391 596154010071 CHC2 zinc finger; Region: zf-CHC2; cl15369 596154010072 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 596154010073 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 596154010074 active site 596154010075 metal binding site [ion binding]; metal-binding site 596154010076 interdomain interaction site; other site 596154010077 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 596154010078 DNA primase; Validated; Region: dnaG; PRK05667 596154010079 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 596154010080 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 596154010081 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 596154010082 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 596154010083 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 596154010084 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 596154010085 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 596154010086 DNA binding residues [nucleotide binding] 596154010087 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 596154010088 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 596154010089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154010090 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 596154010091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154010092 NMT1-like family; Region: NMT1_2; cl15260 596154010093 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154010094 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154010095 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 596154010096 active site 596154010097 catalytic residues [active] 596154010098 metal binding site [ion binding]; metal-binding site 596154010099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154010100 Helix-turn-helix domains; Region: HTH; cl00088 596154010101 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 596154010102 dimerization interface [polypeptide binding]; other site 596154010103 Helix-turn-helix domains; Region: HTH; cl00088 596154010104 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 596154010105 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 596154010106 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 596154010107 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 596154010108 FeS/SAM binding site; other site 596154010109 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 596154010110 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 596154010111 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 596154010112 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 596154010113 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 596154010114 RNA/DNA binding site [nucleotide binding]; other site 596154010115 RRM dimerization site [polypeptide binding]; other site 596154010116 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 596154010117 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 596154010118 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 596154010119 synthetase active site [active] 596154010120 NTP binding site [chemical binding]; other site 596154010121 metal binding site [ion binding]; metal-binding site 596154010122 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 596154010123 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 596154010124 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154010125 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 596154010126 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 596154010127 NAD binding site [chemical binding]; other site 596154010128 homotetramer interface [polypeptide binding]; other site 596154010129 homodimer interface [polypeptide binding]; other site 596154010130 substrate binding site [chemical binding]; other site 596154010131 active site 596154010132 Protein of unknown function (DUF541); Region: SIMPL; cl01077 596154010133 osmolarity response regulator; Provisional; Region: ompR; PRK09468 596154010134 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 596154010135 active site 596154010136 phosphorylation site [posttranslational modification] 596154010137 intermolecular recognition site; other site 596154010138 dimerization interface [polypeptide binding]; other site 596154010139 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 596154010140 DNA binding site [nucleotide binding] 596154010141 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 596154010142 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 596154010143 dimer interface [polypeptide binding]; other site 596154010144 phosphorylation site [posttranslational modification] 596154010145 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 596154010146 ATP binding site [chemical binding]; other site 596154010147 Mg2+ binding site [ion binding]; other site 596154010148 G-X-G motif; other site 596154010149 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 596154010150 homotrimer interaction site [polypeptide binding]; other site 596154010151 zinc binding site [ion binding]; other site 596154010152 CDP-binding sites; other site 596154010153 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 596154010154 substrate binding site; other site 596154010155 dimer interface; other site 596154010156 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 596154010157 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 596154010158 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 596154010159 ATP binding site [chemical binding]; other site 596154010160 putative Mg++ binding site [ion binding]; other site 596154010161 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 596154010162 nucleotide binding region [chemical binding]; other site 596154010163 ATP-binding site [chemical binding]; other site 596154010164 TRCF domain; Region: TRCF; cl04088 596154010165 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 596154010166 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 596154010167 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 596154010168 motif II; other site 596154010169 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 596154010170 phosphoserine phosphatase SerB; Region: serB; TIGR00338 596154010171 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 596154010172 motif II; other site 596154010173 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 596154010174 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 596154010175 active site 596154010176 phosphorylation site [posttranslational modification] 596154010177 intermolecular recognition site; other site 596154010178 dimerization interface [polypeptide binding]; other site 596154010179 LytTr DNA-binding domain; Region: LytTR; cl04498 596154010180 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 596154010181 Dienelactone hydrolase family; Region: DLH; pfam01738 596154010182 enoyl-CoA hydratase; Provisional; Region: PRK07658 596154010183 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 596154010184 substrate binding site [chemical binding]; other site 596154010185 oxyanion hole (OAH) forming residues; other site 596154010186 trimer interface [polypeptide binding]; other site 596154010187 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154010188 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154010189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154010190 NMT1-like family; Region: NMT1_2; cl15260 596154010191 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 596154010192 Helix-turn-helix domains; Region: HTH; cl00088 596154010193 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 596154010194 putative dimerization interface [polypeptide binding]; other site 596154010195 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154010196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154010197 NMT1-like family; Region: NMT1_2; cl15260 596154010198 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154010199 classical (c) SDRs; Region: SDR_c; cd05233 596154010200 NAD(P) binding site [chemical binding]; other site 596154010201 active site 596154010202 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154010203 Helix-turn-helix domains; Region: HTH; cl00088 596154010204 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 596154010205 putative dimerization interface [polypeptide binding]; other site 596154010206 DNA polymerase I; Provisional; Region: PRK05755 596154010207 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 596154010208 active site 596154010209 metal binding site 1 [ion binding]; metal-binding site 596154010210 putative 5' ssDNA interaction site; other site 596154010211 metal binding site 3; metal-binding site 596154010212 metal binding site 2 [ion binding]; metal-binding site 596154010213 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 596154010214 putative DNA binding site [nucleotide binding]; other site 596154010215 putative metal binding site [ion binding]; other site 596154010216 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 596154010217 active site 596154010218 catalytic site [active] 596154010219 substrate binding site [chemical binding]; other site 596154010220 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 596154010221 active site 596154010222 DNA binding site [nucleotide binding] 596154010223 catalytic site [active] 596154010224 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 596154010225 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 596154010226 Phosphotransferase enzyme family; Region: APH; pfam01636 596154010227 putative active site [active] 596154010228 putative substrate binding site [chemical binding]; other site 596154010229 ATP binding site [chemical binding]; other site 596154010230 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 596154010231 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 596154010232 substrate binding pocket [chemical binding]; other site 596154010233 membrane-bound complex binding site; other site 596154010234 hinge residues; other site 596154010235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154010236 metal binding site [ion binding]; metal-binding site 596154010237 active site 596154010238 I-site; other site 596154010239 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 596154010240 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 596154010241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154010242 Family description; Region: UvrD_C_2; cl15862 596154010243 Family description; Region: UvrD_C_2; cl15862 596154010244 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 596154010245 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 596154010246 active site 596154010247 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 596154010248 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 596154010249 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 596154010250 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 596154010251 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 596154010252 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 596154010253 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 596154010254 N-terminal plug; other site 596154010255 ligand-binding site [chemical binding]; other site 596154010256 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 596154010257 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154010258 Walker A/P-loop; other site 596154010259 ATP binding site [chemical binding]; other site 596154010260 Q-loop/lid; other site 596154010261 ABC transporter signature motif; other site 596154010262 Walker B; other site 596154010263 D-loop; other site 596154010264 H-loop/switch region; other site 596154010265 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 596154010266 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 596154010267 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 596154010268 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 596154010269 N-terminal plug; other site 596154010270 ligand-binding site [chemical binding]; other site 596154010271 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 596154010272 ligand binding site [chemical binding]; other site 596154010273 flexible hinge region; other site 596154010274 Helix-turn-helix domains; Region: HTH; cl00088 596154010275 Protein of unknown function (DUF461); Region: DUF461; cl01071 596154010276 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 596154010277 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 596154010278 putative substrate translocation pore; other site 596154010279 YCII-related domain; Region: YCII; cl00999 596154010280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154010281 NMT1-like family; Region: NMT1_2; cl15260 596154010282 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 596154010283 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 596154010284 Muconolactone delta-isomerase; Region: MIase; cl01992 596154010285 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154010286 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154010287 Helix-turn-helix domains; Region: HTH; cl00088 596154010288 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 596154010289 putative dimerization interface [polypeptide binding]; other site 596154010290 PAS domain; Region: PAS_9; pfam13426 596154010291 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 596154010292 PAS domain; Region: PAS_9; pfam13426 596154010293 putative active site [active] 596154010294 heme pocket [chemical binding]; other site 596154010295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154010296 metal binding site [ion binding]; metal-binding site 596154010297 active site 596154010298 I-site; other site 596154010299 helicase 45; Provisional; Region: PTZ00424 596154010300 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 596154010301 ATP binding site [chemical binding]; other site 596154010302 Mg++ binding site [ion binding]; other site 596154010303 motif III; other site 596154010304 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 596154010305 nucleotide binding region [chemical binding]; other site 596154010306 ATP-binding site [chemical binding]; other site 596154010307 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 596154010308 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 596154010309 dimerization interface [polypeptide binding]; other site 596154010310 ligand binding site [chemical binding]; other site 596154010311 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 596154010312 putative active site [active] 596154010313 putative substrate binding site [chemical binding]; other site 596154010314 catalytic site [active] 596154010315 dimer interface [polypeptide binding]; other site 596154010316 Peptidase family M48; Region: Peptidase_M48; cl12018 596154010317 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; cd00488 596154010318 aromatic arch; other site 596154010319 DCoH dimer interaction site [polypeptide binding]; other site 596154010320 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 596154010321 DCoH tetramer interaction site [polypeptide binding]; other site 596154010322 substrate binding site [chemical binding]; other site 596154010323 GTPase RsgA; Reviewed; Region: PRK00098 596154010324 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 596154010325 RNA binding site [nucleotide binding]; other site 596154010326 homodimer interface [polypeptide binding]; other site 596154010327 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 596154010328 GTPase/Zn-binding domain interface [polypeptide binding]; other site 596154010329 GTP/Mg2+ binding site [chemical binding]; other site 596154010330 G4 box; other site 596154010331 G5 box; other site 596154010332 G1 box; other site 596154010333 Switch I region; other site 596154010334 G2 box; other site 596154010335 G3 box; other site 596154010336 Switch II region; other site 596154010337 putative transporter; Provisional; Region: PRK11660 596154010338 Sulfate transporter family; Region: Sulfate_transp; cl15842 596154010339 Sulfate transporter family; Region: Sulfate_transp; cl15842 596154010340 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 596154010341 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 596154010342 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 596154010343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154010344 homodimer interface [polypeptide binding]; other site 596154010345 catalytic residue [active] 596154010346 CobD/Cbib protein; Region: CobD_Cbib; cl00561 596154010347 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 596154010348 putative active site [active] 596154010349 putative CoA binding site [chemical binding]; other site 596154010350 nudix motif; other site 596154010351 metal binding site [ion binding]; metal-binding site 596154010352 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 596154010353 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 596154010354 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 596154010355 RimM N-terminal domain; Region: RimM; pfam01782 596154010356 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 596154010357 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 596154010358 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 596154010359 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 596154010360 TM2 domain; Region: TM2; cl00984 596154010361 Phosphate transporter family; Region: PHO4; cl00396 596154010362 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 596154010363 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 596154010364 Protein of unknown function, DUF486; Region: DUF486; cl01236 596154010365 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154010366 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 596154010367 Walker A/P-loop; other site 596154010368 ATP binding site [chemical binding]; other site 596154010369 Q-loop/lid; other site 596154010370 ABC transporter signature motif; other site 596154010371 Walker B; other site 596154010372 D-loop; other site 596154010373 H-loop/switch region; other site 596154010374 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154010375 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 596154010376 Walker A/P-loop; other site 596154010377 ATP binding site [chemical binding]; other site 596154010378 Q-loop/lid; other site 596154010379 ABC transporter signature motif; other site 596154010380 Walker B; other site 596154010381 D-loop; other site 596154010382 H-loop/switch region; other site 596154010383 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 596154010384 TM-ABC transporter signature motif; other site 596154010385 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 596154010386 TM-ABC transporter signature motif; other site 596154010387 recombination factor protein RarA; Reviewed; Region: PRK13342 596154010388 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 596154010389 Walker A motif; other site 596154010390 ATP binding site [chemical binding]; other site 596154010391 Walker B motif; other site 596154010392 arginine finger; other site 596154010393 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 596154010394 integron integrase; Region: integrase_gron; TIGR02249 596154010395 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 596154010396 Int/Topo IB signature motif; other site 596154010397 Cupin domain; Region: Cupin_2; cl09118 596154010398 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 596154010399 protein binding site [polypeptide binding]; other site 596154010400 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 596154010401 active site 596154010402 Protein of unknown function (DUF1010); Region: DUF1010; pfam06231 596154010403 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 596154010404 topology modulation protein; Provisional; Region: PRK07261 596154010405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154010406 putative transposase OrfB; Reviewed; Region: PHA02517 596154010407 HTH-like domain; Region: HTH_21; pfam13276 596154010408 Integrase core domain; Region: rve; cl01316 596154010409 Integrase core domain; Region: rve_3; cl15866 596154010410 Helix-turn-helix domains; Region: HTH; cl00088 596154010411 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 596154010412 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 596154010413 ligand binding site [chemical binding]; other site 596154010414 active site 596154010415 UbiA prenyltransferase family; Region: UbiA; cl00337 596154010416 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 596154010417 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 596154010418 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 596154010419 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154010420 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 596154010421 thioredoxin reductase; Provisional; Region: PRK10262 596154010422 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154010423 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 596154010424 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 596154010425 16S rRNA methyltransferase B; Provisional; Region: PRK14901 596154010426 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 596154010427 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 596154010428 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 596154010429 active site 596154010430 substrate binding site [chemical binding]; other site 596154010431 cosubstrate binding site; other site 596154010432 catalytic site [active] 596154010433 Protein of unknown function, DUF480; Region: DUF480; cl01209 596154010434 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 596154010435 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154010436 active site 596154010437 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 596154010438 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154010439 active site 596154010440 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 596154010441 active site 596154010442 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 596154010443 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 596154010444 active site 596154010445 Riboflavin kinase; Region: Flavokinase; cl03312 596154010446 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 596154010447 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154010448 active site 596154010449 HIGH motif; other site 596154010450 nucleotide binding site [chemical binding]; other site 596154010451 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 596154010452 active site 596154010453 KMSKS motif; other site 596154010454 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 596154010455 tRNA binding surface [nucleotide binding]; other site 596154010456 anticodon binding site; other site 596154010457 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 596154010458 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 596154010459 Transcriptional regulators [Transcription]; Region: PurR; COG1609 596154010460 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 596154010461 DNA binding site [nucleotide binding] 596154010462 domain linker motif; other site 596154010463 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 596154010464 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 596154010465 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 596154010466 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 596154010467 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 596154010468 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 596154010469 dimer interface [polypeptide binding]; other site 596154010470 conserved gate region; other site 596154010471 putative PBP binding loops; other site 596154010472 ABC-ATPase subunit interface; other site 596154010473 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 596154010474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154010475 Walker A/P-loop; other site 596154010476 ATP binding site [chemical binding]; other site 596154010477 Q-loop/lid; other site 596154010478 ABC transporter signature motif; other site 596154010479 Walker B; other site 596154010480 D-loop; other site 596154010481 H-loop/switch region; other site 596154010482 TOBE domain; Region: TOBE_2; cl01440 596154010483 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 596154010484 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 596154010485 active site 596154010486 metal binding site [ion binding]; metal-binding site 596154010487 hexamer interface [polypeptide binding]; other site 596154010488 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 596154010489 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 596154010490 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 596154010491 PhoU domain; Region: PhoU; pfam01895 596154010492 PhoU domain; Region: PhoU; pfam01895 596154010493 Membrane transport protein; Region: Mem_trans; cl09117 596154010494 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 596154010495 Helix-turn-helix domains; Region: HTH; cl00088 596154010496 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 596154010497 putative dimerization interface [polypeptide binding]; other site 596154010498 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 596154010499 nudix motif; other site 596154010500 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 596154010501 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 596154010502 NADP binding site [chemical binding]; other site 596154010503 dimer interface [polypeptide binding]; other site 596154010504 EamA-like transporter family; Region: EamA; cl01037 596154010505 EamA-like transporter family; Region: EamA; cl01037 596154010506 PAS fold; Region: PAS_7; pfam12860 596154010507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154010508 metal binding site [ion binding]; metal-binding site 596154010509 active site 596154010510 I-site; other site 596154010511 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 596154010512 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 596154010513 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154010514 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 596154010515 putative NAD(P) binding site [chemical binding]; other site 596154010516 putative active site [active] 596154010517 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 596154010518 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 596154010519 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 596154010520 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 596154010521 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 596154010522 Walker A motif; other site 596154010523 ATP binding site [chemical binding]; other site 596154010524 Walker B motif; other site 596154010525 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 596154010526 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 596154010527 putative active site [active] 596154010528 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 596154010529 active site 596154010530 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 596154010531 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 596154010532 dimerization interface [polypeptide binding]; other site 596154010533 putative DNA binding site [nucleotide binding]; other site 596154010534 putative Zn2+ binding site [ion binding]; other site 596154010535 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154010536 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 596154010537 MoxR-like ATPases [General function prediction only]; Region: COG0714 596154010538 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 596154010539 Walker A motif; other site 596154010540 ATP binding site [chemical binding]; other site 596154010541 Walker B motif; other site 596154010542 arginine finger; other site 596154010543 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 596154010544 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 596154010545 metal ion-dependent adhesion site (MIDAS); other site 596154010546 acetyl-CoA synthetase; Provisional; Region: PRK00174 596154010547 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 596154010548 AMP-binding enzyme; Region: AMP-binding; cl15778 596154010549 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154010550 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 596154010551 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 596154010552 Walker A/P-loop; other site 596154010553 ATP binding site [chemical binding]; other site 596154010554 Q-loop/lid; other site 596154010555 ABC transporter signature motif; other site 596154010556 Walker B; other site 596154010557 D-loop; other site 596154010558 H-loop/switch region; other site 596154010559 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 596154010560 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 596154010561 dimer interface [polypeptide binding]; other site 596154010562 conserved gate region; other site 596154010563 putative PBP binding loops; other site 596154010564 ABC-ATPase subunit interface; other site 596154010565 NMT1-like family; Region: NMT1_2; cl15260 596154010566 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 596154010567 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 596154010568 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 596154010569 ligand binding site [chemical binding]; other site 596154010570 flexible hinge region; other site 596154010571 Helix-turn-helix domains; Region: HTH; cl00088 596154010572 fumarate hydratase; Reviewed; Region: fumC; PRK00485 596154010573 Class II fumarases; Region: Fumarase_classII; cd01362 596154010574 active site 596154010575 tetramer interface [polypeptide binding]; other site 596154010576 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 596154010577 Fumarase C-terminus; Region: Fumerase_C; cl00795 596154010578 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 596154010579 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 596154010580 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 596154010581 Protein of unknown function (DUF615); Region: DUF615; cl01147 596154010582 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 596154010583 MPT binding site; other site 596154010584 trimer interface [polypeptide binding]; other site 596154010585 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 596154010586 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 596154010587 tetramer interface [polypeptide binding]; other site 596154010588 catalytic Zn binding site [ion binding]; other site 596154010589 NADP binding site [chemical binding]; other site 596154010590 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 596154010591 putative FMN binding site [chemical binding]; other site 596154010592 serine O-acetyltransferase; Region: cysE; TIGR01172 596154010593 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 596154010594 trimer interface [polypeptide binding]; other site 596154010595 active site 596154010596 substrate binding site [chemical binding]; other site 596154010597 CoA binding site [chemical binding]; other site 596154010598 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 596154010599 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 596154010600 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 596154010601 active site 596154010602 dimerization interface [polypeptide binding]; other site 596154010603 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 596154010604 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 596154010605 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 596154010606 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 596154010607 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 596154010608 ATP binding site [chemical binding]; other site 596154010609 putative Mg++ binding site [ion binding]; other site 596154010610 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 596154010611 nucleotide binding region [chemical binding]; other site 596154010612 ATP-binding site [chemical binding]; other site 596154010613 DEAD/H associated; Region: DEAD_assoc; pfam08494 596154010614 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 596154010615 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 596154010616 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 596154010617 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 596154010618 TPP-binding site; other site 596154010619 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 596154010620 PYR/PP interface [polypeptide binding]; other site 596154010621 dimer interface [polypeptide binding]; other site 596154010622 TPP binding site [chemical binding]; other site 596154010623 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 596154010624 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 596154010625 substrate binding pocket [chemical binding]; other site 596154010626 chain length determination region; other site 596154010627 substrate-Mg2+ binding site; other site 596154010628 catalytic residues [active] 596154010629 aspartate-rich region 1; other site 596154010630 active site lid residues [active] 596154010631 aspartate-rich region 2; other site 596154010632 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 596154010633 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 596154010634 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 596154010635 [2Fe-2S] cluster binding site [ion binding]; other site 596154010636 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 596154010637 alpha subunit interface [polypeptide binding]; other site 596154010638 active site 596154010639 substrate binding site [chemical binding]; other site 596154010640 Fe binding site [ion binding]; other site 596154010641 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 596154010642 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 596154010643 active site residue [active] 596154010644 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 596154010645 active site residue [active] 596154010646 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154010647 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 596154010648 tetramerization interface [polypeptide binding]; other site 596154010649 NAD(P) binding site [chemical binding]; other site 596154010650 catalytic residues [active] 596154010651 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 596154010652 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 596154010653 Competence protein; Region: Competence; cl00471 596154010654 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154010655 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 596154010656 homotrimer interaction site [polypeptide binding]; other site 596154010657 putative active site [active] 596154010658 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 596154010659 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 596154010660 CAP-like domain; other site 596154010661 active site 596154010662 primary dimer interface [polypeptide binding]; other site 596154010663 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 596154010664 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 596154010665 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 596154010666 ATP binding site [chemical binding]; other site 596154010667 Mg2+ binding site [ion binding]; other site 596154010668 G-X-G motif; other site 596154010669 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 596154010670 anchoring element; other site 596154010671 dimer interface [polypeptide binding]; other site 596154010672 ATP binding site [chemical binding]; other site 596154010673 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 596154010674 active site 596154010675 metal binding site [ion binding]; metal-binding site 596154010676 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 596154010677 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 596154010678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154010679 putative substrate translocation pore; other site 596154010680 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 596154010681 S-adenosylmethionine binding site [chemical binding]; other site 596154010682 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 596154010683 dihydrodipicolinate synthase; Region: dapA; TIGR00674 596154010684 dimer interface [polypeptide binding]; other site 596154010685 active site 596154010686 catalytic residue [active] 596154010687 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 596154010688 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 596154010689 Uncharacterized conserved protein [Function unknown]; Region: COG2850 596154010690 JmjC domain, hydroxylase; Region: JmjC; cl15814 596154010691 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 596154010692 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 596154010693 trimer interface [polypeptide binding]; other site 596154010694 active site 596154010695 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 596154010696 Flavoprotein; Region: Flavoprotein; cl08021 596154010697 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 596154010698 CTP synthetase; Validated; Region: pyrG; PRK05380 596154010699 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 596154010700 Catalytic site [active] 596154010701 active site 596154010702 UTP binding site [chemical binding]; other site 596154010703 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 596154010704 active site 596154010705 putative oxyanion hole; other site 596154010706 catalytic triad [active] 596154010707 NeuB family; Region: NeuB; cl00496 596154010708 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 596154010709 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 596154010710 enolase; Provisional; Region: eno; PRK00077 596154010711 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 596154010712 dimer interface [polypeptide binding]; other site 596154010713 metal binding site [ion binding]; metal-binding site 596154010714 substrate binding pocket [chemical binding]; other site 596154010715 Septum formation initiator; Region: DivIC; cl11433 596154010716 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 596154010717 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 596154010718 Walker A/P-loop; other site 596154010719 ATP binding site [chemical binding]; other site 596154010720 Q-loop/lid; other site 596154010721 ABC transporter signature motif; other site 596154010722 Walker B; other site 596154010723 D-loop; other site 596154010724 H-loop/switch region; other site 596154010725 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 596154010726 dimer interface [polypeptide binding]; other site 596154010727 conserved gate region; other site 596154010728 putative PBP binding loops; other site 596154010729 ABC-ATPase subunit interface; other site 596154010730 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 596154010731 dimer interface [polypeptide binding]; other site 596154010732 conserved gate region; other site 596154010733 putative PBP binding loops; other site 596154010734 ABC-ATPase subunit interface; other site 596154010735 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 596154010736 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 596154010737 substrate binding pocket [chemical binding]; other site 596154010738 membrane-bound complex binding site; other site 596154010739 hinge residues; other site 596154010740 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 596154010741 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 596154010742 dimerization interface [polypeptide binding]; other site 596154010743 domain crossover interface; other site 596154010744 redox-dependent activation switch; other site 596154010745 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 596154010746 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 596154010747 trimer interface [polypeptide binding]; other site 596154010748 putative metal binding site [ion binding]; other site 596154010749 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 596154010750 dinuclear metal binding motif [ion binding]; other site 596154010751 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 596154010752 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 596154010753 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 596154010754 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 596154010755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154010756 NMT1-like family; Region: NMT1_2; cl15260 596154010757 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 596154010758 PAS domain; Region: PAS_9; pfam13426 596154010759 putative active site [active] 596154010760 heme pocket [chemical binding]; other site 596154010761 Helix-turn-helix domains; Region: HTH; cl00088 596154010762 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 596154010763 active site 596154010764 putative DNA-binding cleft [nucleotide binding]; other site 596154010765 dimer interface [polypeptide binding]; other site 596154010766 Helix-turn-helix domains; Region: HTH; cl00088 596154010767 putative transposase OrfB; Reviewed; Region: PHA02517 596154010768 Integrase core domain; Region: rve; cl01316 596154010769 Integrase core domain; Region: rve_3; cl15866 596154010770 Transglycosylase; Region: Transgly; cl07896 596154010771 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 596154010772 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 596154010773 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 596154010774 shikimate binding site; other site 596154010775 NAD(P) binding site [chemical binding]; other site 596154010776 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 596154010777 Gram-negative bacterial tonB protein; Region: TonB; cl10048 596154010778 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 596154010779 RNB domain; Region: RNB; pfam00773 596154010780 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 596154010781 RNA polymerase sigma factor; Provisional; Region: PRK11922 596154010782 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 596154010783 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 596154010784 DNA binding residues [nucleotide binding] 596154010785 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 596154010786 dinuclear metal binding motif [ion binding]; other site 596154010787 Cytochrome c; Region: Cytochrom_C; cl11414 596154010788 O-Antigen ligase; Region: Wzy_C; cl04850 596154010789 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 596154010790 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 596154010791 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154010792 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 596154010793 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 596154010794 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 596154010795 NeuB family; Region: NeuB; cl00496 596154010796 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 596154010797 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 596154010798 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 596154010799 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 596154010800 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 596154010801 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 596154010802 catalytic residues [active] 596154010803 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 596154010804 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 596154010805 carboxyltransferase (CT) interaction site; other site 596154010806 biotinylation site [posttranslational modification]; other site 596154010807 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 596154010808 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154010809 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154010810 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154010811 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 596154010812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154010813 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 596154010814 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 596154010815 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 596154010816 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 596154010817 substrate binding site [chemical binding]; other site 596154010818 ATP binding site [chemical binding]; other site 596154010819 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 596154010820 dimer interface [polypeptide binding]; other site 596154010821 putative radical transfer pathway; other site 596154010822 diiron center [ion binding]; other site 596154010823 tyrosyl radical; other site 596154010824 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 596154010825 ATP cone domain; Region: ATP-cone; pfam03477 596154010826 Class I ribonucleotide reductase; Region: RNR_I; cd01679 596154010827 active site 596154010828 dimer interface [polypeptide binding]; other site 596154010829 catalytic residues [active] 596154010830 effector binding site; other site 596154010831 R2 peptide binding site; other site 596154010832 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 596154010833 amidase catalytic site [active] 596154010834 Zn binding residues [ion binding]; other site 596154010835 substrate binding site [chemical binding]; other site 596154010836 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 596154010837 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 596154010838 active site 596154010839 phosphorylation site [posttranslational modification] 596154010840 intermolecular recognition site; other site 596154010841 dimerization interface [polypeptide binding]; other site 596154010842 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 596154010843 Walker A motif; other site 596154010844 ATP binding site [chemical binding]; other site 596154010845 Walker B motif; other site 596154010846 arginine finger; other site 596154010847 Helix-turn-helix domains; Region: HTH; cl00088 596154010848 sensory histidine kinase AtoS; Provisional; Region: PRK11360 596154010849 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 596154010850 dimer interface [polypeptide binding]; other site 596154010851 phosphorylation site [posttranslational modification] 596154010852 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 596154010853 ATP binding site [chemical binding]; other site 596154010854 Mg2+ binding site [ion binding]; other site 596154010855 G-X-G motif; other site 596154010856 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 596154010857 signal recognition particle protein; Provisional; Region: PRK10867 596154010858 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 596154010859 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 596154010860 GTP binding site [chemical binding]; other site 596154010861 Signal peptide binding domain; Region: SRP_SPB; pfam02978 596154010862 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 596154010863 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 596154010864 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 596154010865 FeS/SAM binding site; other site 596154010866 TRAM domain; Region: TRAM; cl01282 596154010867 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 596154010868 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 596154010869 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 596154010870 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 596154010871 dimerization domain [polypeptide binding]; other site 596154010872 dimer interface [polypeptide binding]; other site 596154010873 catalytic residues [active] 596154010874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154010875 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 596154010876 GTP-binding protein YchF; Reviewed; Region: PRK09601 596154010877 YchF GTPase; Region: YchF; cd01900 596154010878 G1 box; other site 596154010879 GTP/Mg2+ binding site [chemical binding]; other site 596154010880 Switch I region; other site 596154010881 G2 box; other site 596154010882 Switch II region; other site 596154010883 G3 box; other site 596154010884 G4 box; other site 596154010885 G5 box; other site 596154010886 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 596154010887 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 596154010888 Helix-turn-helix domains; Region: HTH; cl00088 596154010889 HTH-like domain; Region: HTH_21; pfam13276 596154010890 Helix-turn-helix domains; Region: HTH; cl00088 596154010891 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154010892 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 596154010893 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154010894 Integrase core domain; Region: rve; cl01316 596154010895 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 596154010896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154010897 Integrase core domain; Region: rve; cl01316 596154010898 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 596154010899 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 596154010900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154010901 active site 596154010902 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 596154010903 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 596154010904 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 596154010905 catalytic residues [active] 596154010906 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 596154010907 putative substrate translocation pore; other site 596154010908 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154010909 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 596154010910 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 596154010911 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 596154010912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 596154010913 putative substrate translocation pore; other site 596154010914 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 596154010915 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 596154010916 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 596154010917 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 596154010918 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 596154010919 NADP binding site [chemical binding]; other site 596154010920 dimer interface [polypeptide binding]; other site 596154010921 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 596154010922 Ligand Binding Site [chemical binding]; other site 596154010923 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 596154010924 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 596154010925 [2Fe-2S] cluster binding site [ion binding]; other site 596154010926 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 596154010927 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 596154010928 DNA binding residues [nucleotide binding] 596154010929 dimerization interface [polypeptide binding]; other site 596154010930 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 596154010931 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 596154010932 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 596154010933 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 596154010934 Protein export membrane protein; Region: SecD_SecF; cl14618 596154010935 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 596154010936 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 596154010937 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 596154010938 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 596154010939 FMN binding site [chemical binding]; other site 596154010940 active site 596154010941 catalytic residues [active] 596154010942 substrate binding site [chemical binding]; other site 596154010943 Helix-turn-helix domains; Region: HTH; cl00088 596154010944 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 596154010945 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 596154010946 purine monophosphate binding site [chemical binding]; other site 596154010947 dimer interface [polypeptide binding]; other site 596154010948 putative catalytic residues [active] 596154010949 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 596154010950 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 596154010951 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 596154010952 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 596154010953 inhibitor-cofactor binding pocket; inhibition site 596154010954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154010955 catalytic residue [active] 596154010956 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 596154010957 substrate binding site [chemical binding]; other site 596154010958 ATP binding site [chemical binding]; other site 596154010959 Rubredoxin [Energy production and conversion]; Region: COG1773 596154010960 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 596154010961 iron binding site [ion binding]; other site 596154010962 Response regulator receiver domain; Region: Response_reg; pfam00072 596154010963 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 596154010964 active site 596154010965 phosphorylation site [posttranslational modification] 596154010966 intermolecular recognition site; other site 596154010967 dimerization interface [polypeptide binding]; other site 596154010968 Response regulator receiver domain; Region: Response_reg; pfam00072 596154010969 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 596154010970 active site 596154010971 phosphorylation site [posttranslational modification] 596154010972 intermolecular recognition site; other site 596154010973 dimerization interface [polypeptide binding]; other site 596154010974 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 596154010975 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 596154010976 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154010977 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154010978 dimer interface [polypeptide binding]; other site 596154010979 putative CheW interface [polypeptide binding]; other site 596154010980 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 596154010981 putative binding surface; other site 596154010982 active site 596154010983 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 596154010984 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 596154010985 putative binding surface; other site 596154010986 active site 596154010987 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 596154010988 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 596154010989 ATP binding site [chemical binding]; other site 596154010990 Mg2+ binding site [ion binding]; other site 596154010991 G-X-G motif; other site 596154010992 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 596154010993 Response regulator receiver domain; Region: Response_reg; pfam00072 596154010994 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 596154010995 active site 596154010996 phosphorylation site [posttranslational modification] 596154010997 intermolecular recognition site; other site 596154010998 dimerization interface [polypeptide binding]; other site 596154010999 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 596154011000 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 596154011001 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154011002 active site 596154011003 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 596154011004 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 596154011005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011006 dihydroorotase; Provisional; Region: PRK07627 596154011007 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 596154011008 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 596154011009 active site 596154011010 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 596154011011 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 596154011012 putative acyl-acceptor binding pocket; other site 596154011013 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 596154011014 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 596154011015 Walker A/P-loop; other site 596154011016 ATP binding site [chemical binding]; other site 596154011017 Q-loop/lid; other site 596154011018 ABC transporter signature motif; other site 596154011019 Walker B; other site 596154011020 D-loop; other site 596154011021 H-loop/switch region; other site 596154011022 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 596154011023 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 596154011024 dimer interface [polypeptide binding]; other site 596154011025 conserved gate region; other site 596154011026 putative PBP binding loops; other site 596154011027 ABC-ATPase subunit interface; other site 596154011028 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 596154011029 ArsC family; Region: ArsC; pfam03960 596154011030 catalytic residues [active] 596154011031 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 596154011032 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 596154011033 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 596154011034 protein binding site [polypeptide binding]; other site 596154011035 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 596154011036 protein binding site [polypeptide binding]; other site 596154011037 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 596154011038 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 596154011039 active site 596154011040 phosphorylation site [posttranslational modification] 596154011041 intermolecular recognition site; other site 596154011042 dimerization interface [polypeptide binding]; other site 596154011043 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 596154011044 DNA binding site [nucleotide binding] 596154011045 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 596154011046 dimer interface [polypeptide binding]; other site 596154011047 phosphorylation site [posttranslational modification] 596154011048 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 596154011049 ATP binding site [chemical binding]; other site 596154011050 Mg2+ binding site [ion binding]; other site 596154011051 G-X-G motif; other site 596154011052 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 596154011053 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 596154011054 putative active site [active] 596154011055 catalytic site [active] 596154011056 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 596154011057 putative active site [active] 596154011058 catalytic site [active] 596154011059 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 596154011060 heme bH binding site [chemical binding]; other site 596154011061 intrachain domain interface; other site 596154011062 heme bL binding site [chemical binding]; other site 596154011063 interchain domain interface [polypeptide binding]; other site 596154011064 Qo binding site; other site 596154011065 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 596154011066 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 596154011067 catalytic loop [active] 596154011068 iron binding site [ion binding]; other site 596154011069 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 596154011070 FAD binding pocket [chemical binding]; other site 596154011071 FAD binding motif [chemical binding]; other site 596154011072 phosphate binding motif [ion binding]; other site 596154011073 beta-alpha-beta structure motif; other site 596154011074 NAD binding pocket [chemical binding]; other site 596154011075 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 596154011076 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 596154011077 intrachain domain interface; other site 596154011078 heme bL binding site [chemical binding]; other site 596154011079 heme bH binding site [chemical binding]; other site 596154011080 Qo binding site; other site 596154011081 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 596154011082 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 596154011083 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 596154011084 Cu(I) binding site [ion binding]; other site 596154011085 UbiA prenyltransferase family; Region: UbiA; cl00337 596154011086 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 596154011087 Low-spin heme binding site [chemical binding]; other site 596154011088 D-pathway; other site 596154011089 Putative water exit pathway; other site 596154011090 Binuclear center (active site) [active] 596154011091 K-pathway; other site 596154011092 Putative proton exit pathway; other site 596154011093 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154011094 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 596154011095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 596154011096 Family of unknown function (DUF490); Region: DUF490; pfam04357 596154011097 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 596154011098 Surface antigen; Region: Bac_surface_Ag; cl03097 596154011099 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 596154011100 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154011101 enoyl-CoA hydratase; Provisional; Region: PRK07657 596154011102 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 596154011103 substrate binding site [chemical binding]; other site 596154011104 oxyanion hole (OAH) forming residues; other site 596154011105 trimer interface [polypeptide binding]; other site 596154011106 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154011107 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154011108 active site 596154011109 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154011110 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154011111 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 596154011112 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154011113 DNA-binding site [nucleotide binding]; DNA binding site 596154011114 UTRA domain; Region: UTRA; cl01230 596154011115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011116 NMT1-like family; Region: NMT1_2; cl15260 596154011117 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 596154011118 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 596154011119 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 596154011120 Walker A motif; other site 596154011121 ATP binding site [chemical binding]; other site 596154011122 Walker B motif; other site 596154011123 arginine finger; other site 596154011124 Cytochrome c; Region: Cytochrom_C; cl11414 596154011125 Cytochrome c; Region: Cytochrom_C; cl11414 596154011126 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 596154011127 Ligand Binding Site [chemical binding]; other site 596154011128 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 596154011129 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 596154011130 Helix-turn-helix domains; Region: HTH; cl00088 596154011131 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154011132 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 596154011133 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 596154011134 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 596154011135 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 596154011136 dimer interface [polypeptide binding]; other site 596154011137 active site 596154011138 short chain dehydrogenase; Provisional; Region: PRK12829 596154011139 classical (c) SDRs; Region: SDR_c; cd05233 596154011140 NAD(P) binding site [chemical binding]; other site 596154011141 active site 596154011142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011143 NMT1-like family; Region: NMT1_2; cl15260 596154011144 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 596154011145 putative substrate binding pocket [chemical binding]; other site 596154011146 putative dimerization interface [polypeptide binding]; other site 596154011147 NMT1-like family; Region: NMT1_2; cl15260 596154011148 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 596154011149 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 596154011150 metal binding site [ion binding]; metal-binding site 596154011151 putative dimer interface [polypeptide binding]; other site 596154011152 NMT1-like family; Region: NMT1_2; cl15260 596154011153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011154 NMT1-like family; Region: NMT1_2; cl15260 596154011155 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 596154011156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 596154011157 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 596154011158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011159 NMT1-like family; Region: NMT1_2; cl15260 596154011160 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 596154011161 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 596154011162 substrate binding site [chemical binding]; other site 596154011163 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 596154011164 substrate binding site [chemical binding]; other site 596154011165 ligand binding site [chemical binding]; other site 596154011166 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 596154011167 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 596154011168 tetramer interface [polypeptide binding]; other site 596154011169 active site 596154011170 Mg2+/Mn2+ binding site [ion binding]; other site 596154011171 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 596154011172 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154011173 DNA-binding site [nucleotide binding]; DNA binding site 596154011174 UTRA domain; Region: UTRA; cl01230 596154011175 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 596154011176 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 596154011177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011178 LysE type translocator; Region: LysE; cl00565 596154011179 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 596154011180 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 596154011181 P-loop; other site 596154011182 Magnesium ion binding site [ion binding]; other site 596154011183 Helix-turn-helix domains; Region: HTH; cl00088 596154011184 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 596154011185 putative effector binding pocket; other site 596154011186 dimerization interface [polypeptide binding]; other site 596154011187 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 596154011188 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154011189 active site 596154011190 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 596154011191 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 596154011192 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 596154011193 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 596154011194 Cytochrome c; Region: Cytochrom_C; cl11414 596154011195 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 596154011196 Subunit I/III interface [polypeptide binding]; other site 596154011197 D-pathway; other site 596154011198 Subunit I/VIIc interface [polypeptide binding]; other site 596154011199 Subunit I/IV interface [polypeptide binding]; other site 596154011200 Subunit I/II interface [polypeptide binding]; other site 596154011201 Low-spin heme (heme a) binding site [chemical binding]; other site 596154011202 Subunit I/VIIa interface [polypeptide binding]; other site 596154011203 Subunit I/VIa interface [polypeptide binding]; other site 596154011204 Dimer interface; other site 596154011205 Putative water exit pathway; other site 596154011206 Binuclear center (heme a3/CuB) [ion binding]; other site 596154011207 K-pathway; other site 596154011208 Subunit I/Vb interface [polypeptide binding]; other site 596154011209 Putative proton exit pathway; other site 596154011210 Subunit I/VIb interface; other site 596154011211 Subunit I/VIc interface [polypeptide binding]; other site 596154011212 Electron transfer pathway; other site 596154011213 Subunit I/VIIIb interface [polypeptide binding]; other site 596154011214 Subunit I/VIIb interface [polypeptide binding]; other site 596154011215 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 596154011216 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 596154011217 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 596154011218 Subunit III/VIIa interface [polypeptide binding]; other site 596154011219 Phospholipid binding site [chemical binding]; other site 596154011220 Subunit I/III interface [polypeptide binding]; other site 596154011221 Subunit III/VIb interface [polypeptide binding]; other site 596154011222 Subunit III/VIa interface; other site 596154011223 Subunit III/Vb interface [polypeptide binding]; other site 596154011224 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 596154011225 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 596154011226 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 596154011227 UbiA prenyltransferase family; Region: UbiA; cl00337 596154011228 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 596154011229 Cu(I) binding site [ion binding]; other site 596154011230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011231 NMT1-like family; Region: NMT1_2; cl15260 596154011232 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 596154011233 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 596154011234 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 596154011235 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 596154011236 DNA binding residues [nucleotide binding] 596154011237 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 596154011238 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154011239 Integrase core domain; Region: rve; cl01316 596154011240 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 596154011241 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 596154011242 Helix-turn-helix domains; Region: HTH; cl00088 596154011243 HTH-like domain; Region: HTH_21; pfam13276 596154011244 Helix-turn-helix domains; Region: HTH; cl00088 596154011245 Sporulation related domain; Region: SPOR; cl10051 596154011246 Potato inhibitor I family; Region: potato_inhibit; cl15459 596154011247 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 596154011248 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 596154011249 FeS/SAM binding site; other site 596154011250 HemN C-terminal domain; Region: HemN_C; pfam06969 596154011251 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 596154011252 active site 596154011253 dimerization interface [polypeptide binding]; other site 596154011254 ribonuclease PH; Reviewed; Region: rph; PRK00173 596154011255 Ribonuclease PH; Region: RNase_PH_bact; cd11362 596154011256 hexamer interface [polypeptide binding]; other site 596154011257 active site 596154011258 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 596154011259 Protein phosphatase 2C; Region: PP2C; pfam00481 596154011260 active site 596154011261 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 596154011262 Catalytic domain of Protein Kinases; Region: PKc; cd00180 596154011263 active site 596154011264 ATP binding site [chemical binding]; other site 596154011265 substrate binding site [chemical binding]; other site 596154011266 activation loop (A-loop); other site 596154011267 hypothetical protein; Provisional; Region: PRK11820 596154011268 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 596154011269 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 596154011270 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 596154011271 baseplate wedge subunit; Provisional; Region: 6; PHA02553 596154011272 baseplate wedge subunit; Provisional; Region: 6; PHA02553 596154011273 Baseplate J-like protein; Region: Baseplate_J; cl01294 596154011274 Baseplate J-like protein; Region: Baseplate_J; cl01294 596154011275 Baseplate J-like protein; Region: Baseplate_J; cl01294 596154011276 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 596154011277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 596154011278 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 596154011279 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 596154011280 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 596154011281 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 596154011282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154011283 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 596154011284 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 596154011285 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 596154011286 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 596154011287 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 596154011288 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 596154011289 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 596154011290 catalytic site [active] 596154011291 G-X2-G-X-G-K; other site 596154011292 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 596154011293 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 596154011294 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 596154011295 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 596154011296 synthetase active site [active] 596154011297 NTP binding site [chemical binding]; other site 596154011298 metal binding site [ion binding]; metal-binding site 596154011299 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 596154011300 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 596154011301 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 596154011302 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 596154011303 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 596154011304 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 596154011305 16S/18S rRNA binding site [nucleotide binding]; other site 596154011306 S13e-L30e interaction site [polypeptide binding]; other site 596154011307 25S rRNA binding site [nucleotide binding]; other site 596154011308 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 596154011309 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 596154011310 RNase E interface [polypeptide binding]; other site 596154011311 trimer interface [polypeptide binding]; other site 596154011312 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 596154011313 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 596154011314 RNase E interface [polypeptide binding]; other site 596154011315 trimer interface [polypeptide binding]; other site 596154011316 active site 596154011317 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 596154011318 putative nucleic acid binding region [nucleotide binding]; other site 596154011319 G-X-X-G motif; other site 596154011320 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 596154011321 RNA binding site [nucleotide binding]; other site 596154011322 domain interface; other site 596154011323 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 596154011324 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 596154011325 NAD(P) binding site [chemical binding]; other site 596154011326 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 596154011327 substrate binding site [chemical binding]; other site 596154011328 dimer interface [polypeptide binding]; other site 596154011329 catalytic triad [active] 596154011330 Preprotein translocase SecG subunit; Region: SecG; cl09123 596154011331 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 596154011332 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 596154011333 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 596154011334 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 596154011335 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 596154011336 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 596154011337 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 596154011338 putative dimer interface [polypeptide binding]; other site 596154011339 [2Fe-2S] cluster binding site [ion binding]; other site 596154011340 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 596154011341 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 596154011342 SLBB domain; Region: SLBB; pfam10531 596154011343 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 596154011344 NADH dehydrogenase subunit G; Validated; Region: PRK09129 596154011345 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 596154011346 catalytic loop [active] 596154011347 iron binding site [ion binding]; other site 596154011348 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 596154011349 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 596154011350 NADH dehydrogenase; Region: NADHdh; cl00469 596154011351 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 596154011352 4Fe-4S binding domain; Region: Fer4; cl02805 596154011353 4Fe-4S binding domain; Region: Fer4; cl02805 596154011354 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 596154011355 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 596154011356 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 596154011357 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 596154011358 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 596154011359 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 596154011360 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 596154011361 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 596154011362 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 596154011363 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 596154011364 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 596154011365 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 596154011366 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 596154011367 glutamate dehydrogenase; Provisional; Region: PRK09414 596154011368 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 596154011369 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 596154011370 NAD(P) binding site [chemical binding]; other site 596154011371 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 596154011372 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 596154011373 ATP binding site [chemical binding]; other site 596154011374 Mg2+ binding site [ion binding]; other site 596154011375 G-X-G motif; other site 596154011376 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 596154011377 ATP binding site [chemical binding]; other site 596154011378 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 596154011379 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 596154011380 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 596154011381 guanine deaminase; Provisional; Region: PRK09228 596154011382 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 596154011383 active site 596154011384 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 596154011385 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154011386 Helix-turn-helix domains; Region: HTH; cl00088 596154011387 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 596154011388 dimerization interface [polypeptide binding]; other site 596154011389 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 596154011390 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 596154011391 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 596154011392 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 596154011393 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 596154011394 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 596154011395 Cupin domain; Region: Cupin_2; cl09118 596154011396 AMIN domain; Region: AMIN; pfam11741 596154011397 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 596154011398 active site 596154011399 metal binding site [ion binding]; metal-binding site 596154011400 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 596154011401 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 596154011402 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 596154011403 Membrane transport protein; Region: Mem_trans; cl09117 596154011404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011405 NMT1-like family; Region: NMT1_2; cl15260 596154011406 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 596154011407 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 596154011408 Int/Topo IB signature motif; other site 596154011409 active site 596154011410 hypothetical protein; Provisional; Region: PRK08317 596154011411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011412 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 596154011413 ThiC-associated domain; Region: ThiC-associated; pfam13667 596154011414 ThiC family; Region: ThiC; cl08031 596154011415 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 596154011416 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 596154011417 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154011418 Helix-turn-helix domains; Region: HTH; cl00088 596154011419 Putative cyclase; Region: Cyclase; cl00814 596154011420 acyl-CoA synthetase; Validated; Region: PRK06164 596154011421 AMP-binding enzyme; Region: AMP-binding; cl15778 596154011422 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154011423 classical (c) SDRs; Region: SDR_c; cd05233 596154011424 NAD(P) binding site [chemical binding]; other site 596154011425 active site 596154011426 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154011427 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 596154011428 putative ligand binding site [chemical binding]; other site 596154011429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011430 NMT1-like family; Region: NMT1_2; cl15260 596154011431 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154011432 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154011433 active site 596154011434 cell division protein FtsZ; Validated; Region: PRK09330 596154011435 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 596154011436 nucleotide binding site [chemical binding]; other site 596154011437 SulA interaction site; other site 596154011438 cell division protein FtsA; Region: ftsA; TIGR01174 596154011439 Cell division protein FtsA; Region: FtsA; cl11496 596154011440 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 596154011441 ATP binding site [chemical binding]; other site 596154011442 profilin binding site; other site 596154011443 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 596154011444 Cell division protein FtsQ; Region: FtsQ; pfam03799 596154011445 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 596154011446 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 596154011447 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154011448 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 596154011449 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 596154011450 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 596154011451 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 596154011452 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 596154011453 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 596154011454 active site 596154011455 homodimer interface [polypeptide binding]; other site 596154011456 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 596154011457 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 596154011458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011459 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 596154011460 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 596154011461 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 596154011462 Mg++ binding site [ion binding]; other site 596154011463 putative catalytic motif [active] 596154011464 putative substrate binding site [chemical binding]; other site 596154011465 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 596154011466 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 596154011467 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 596154011468 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 596154011469 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 596154011470 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 596154011471 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 596154011472 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 596154011473 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 596154011474 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 596154011475 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154011476 Septum formation initiator; Region: DivIC; cl11433 596154011477 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 596154011478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011479 MraZ protein; Region: MraZ; pfam02381 596154011480 MraZ protein; Region: MraZ; pfam02381 596154011481 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 596154011482 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 596154011483 Walker A motif; other site 596154011484 ATP binding site [chemical binding]; other site 596154011485 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154011486 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 596154011487 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 596154011488 active site 596154011489 HslU subunit interaction site [polypeptide binding]; other site 596154011490 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 596154011491 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 596154011492 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 596154011493 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 596154011494 P-loop, Walker A motif; other site 596154011495 Base recognition motif; other site 596154011496 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 596154011497 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 596154011498 Response regulator receiver domain; Region: Response_reg; pfam00072 596154011499 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 596154011500 active site 596154011501 phosphorylation site [posttranslational modification] 596154011502 intermolecular recognition site; other site 596154011503 dimerization interface [polypeptide binding]; other site 596154011504 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154011505 DNA binding residues [nucleotide binding] 596154011506 Response regulator receiver domain; Region: Response_reg; pfam00072 596154011507 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 596154011508 active site 596154011509 phosphorylation site [posttranslational modification] 596154011510 intermolecular recognition site; other site 596154011511 dimerization interface [polypeptide binding]; other site 596154011512 Response regulator receiver domain; Region: Response_reg; pfam00072 596154011513 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 596154011514 active site 596154011515 phosphorylation site [posttranslational modification] 596154011516 intermolecular recognition site; other site 596154011517 dimerization interface [polypeptide binding]; other site 596154011518 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 596154011519 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 596154011520 PAS domain; Region: PAS_9; pfam13426 596154011521 putative active site [active] 596154011522 heme pocket [chemical binding]; other site 596154011523 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 596154011524 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 596154011525 putative active site [active] 596154011526 heme pocket [chemical binding]; other site 596154011527 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 596154011528 dimer interface [polypeptide binding]; other site 596154011529 phosphorylation site [posttranslational modification] 596154011530 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 596154011531 ATP binding site [chemical binding]; other site 596154011532 Mg2+ binding site [ion binding]; other site 596154011533 G-X-G motif; other site 596154011534 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 596154011535 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 596154011536 active site 596154011537 phosphorylation site [posttranslational modification] 596154011538 intermolecular recognition site; other site 596154011539 Response regulator receiver domain; Region: Response_reg; pfam00072 596154011540 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 596154011541 active site 596154011542 phosphorylation site [posttranslational modification] 596154011543 intermolecular recognition site; other site 596154011544 dimerization interface [polypeptide binding]; other site 596154011545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 596154011546 Zn2+ binding site [ion binding]; other site 596154011547 Mg2+ binding site [ion binding]; other site 596154011548 PAS domain S-box; Region: sensory_box; TIGR00229 596154011549 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 596154011550 putative active site [active] 596154011551 heme pocket [chemical binding]; other site 596154011552 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 596154011553 dimer interface [polypeptide binding]; other site 596154011554 phosphorylation site [posttranslational modification] 596154011555 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 596154011556 ATP binding site [chemical binding]; other site 596154011557 Mg2+ binding site [ion binding]; other site 596154011558 G-X-G motif; other site 596154011559 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 596154011560 dimer interface [polypeptide binding]; other site 596154011561 phosphorylation site [posttranslational modification] 596154011562 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 596154011563 ATP binding site [chemical binding]; other site 596154011564 Mg2+ binding site [ion binding]; other site 596154011565 G-X-G motif; other site 596154011566 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 596154011567 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 596154011568 dimerization interface [polypeptide binding]; other site 596154011569 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154011570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154011571 dimer interface [polypeptide binding]; other site 596154011572 putative CheW interface [polypeptide binding]; other site 596154011573 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 596154011574 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 596154011575 DNA binding site [nucleotide binding] 596154011576 Int/Topo IB signature motif; other site 596154011577 active site 596154011578 GAF domain; Region: GAF; cl15785 596154011579 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 596154011580 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 596154011581 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 596154011582 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 596154011583 nudix motif; other site 596154011584 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 596154011585 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154011586 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 596154011587 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 596154011588 RNA binding surface [nucleotide binding]; other site 596154011589 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 596154011590 active site 596154011591 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 596154011592 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 596154011593 dimer interface [polypeptide binding]; other site 596154011594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154011595 catalytic residue [active] 596154011596 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 596154011597 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 596154011598 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154011599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154011600 Helix-turn-helix domains; Region: HTH; cl00088 596154011601 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 596154011602 putative dimerization interface [polypeptide binding]; other site 596154011603 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 596154011604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011605 NMT1-like family; Region: NMT1_2; cl15260 596154011606 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154011607 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154011608 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154011609 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 596154011610 active site 596154011611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011612 NMT1-like family; Region: NMT1_2; cl15260 596154011613 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 596154011614 Helix-turn-helix domains; Region: HTH; cl00088 596154011615 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154011616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011617 NAD(P) binding site [chemical binding]; other site 596154011618 active site 596154011619 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 596154011620 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 596154011621 substrate binding site [chemical binding]; other site 596154011622 oxyanion hole (OAH) forming residues; other site 596154011623 trimer interface [polypeptide binding]; other site 596154011624 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 596154011625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154011626 active site 596154011627 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 596154011628 AMP-binding enzyme; Region: AMP-binding; cl15778 596154011629 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 596154011630 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 596154011631 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 596154011632 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 596154011633 Ligand binding site [chemical binding]; other site 596154011634 Electron transfer flavoprotein domain; Region: ETF; pfam01012 596154011635 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 596154011636 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 596154011637 FMN binding site [chemical binding]; other site 596154011638 substrate binding site [chemical binding]; other site 596154011639 putative catalytic residue [active] 596154011640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011641 NMT1-like family; Region: NMT1_2; cl15260 596154011642 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154011643 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154011644 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 596154011645 CoenzymeA binding site [chemical binding]; other site 596154011646 subunit interaction site [polypeptide binding]; other site 596154011647 PHB binding site; other site 596154011648 enoyl-CoA hydratase; Provisional; Region: PRK07511 596154011649 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 596154011650 substrate binding site [chemical binding]; other site 596154011651 oxyanion hole (OAH) forming residues; other site 596154011652 trimer interface [polypeptide binding]; other site 596154011653 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 596154011654 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 596154011655 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 596154011656 active site 596154011657 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 596154011658 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154011659 active site 596154011660 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 596154011661 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 596154011662 dimer interface [polypeptide binding]; other site 596154011663 active site 596154011664 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 596154011665 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 596154011666 substrate binding site [chemical binding]; other site 596154011667 oxyanion hole (OAH) forming residues; other site 596154011668 trimer interface [polypeptide binding]; other site 596154011669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011670 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154011671 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154011672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154011673 Helix-turn-helix domains; Region: HTH; cl00088 596154011674 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 596154011675 putative effector binding pocket; other site 596154011676 dimerization interface [polypeptide binding]; other site 596154011677 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 596154011678 putative transposase OrfB; Reviewed; Region: PHA02517 596154011679 HTH-like domain; Region: HTH_21; pfam13276 596154011680 Integrase core domain; Region: rve; cl01316 596154011681 Integrase core domain; Region: rve_3; cl15866 596154011682 Helix-turn-helix domains; Region: HTH; cl00088 596154011683 Peptidase family M48; Region: Peptidase_M48; cl12018 596154011684 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 596154011685 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 596154011686 active site 596154011687 substrate binding pocket [chemical binding]; other site 596154011688 dimer interface [polypeptide binding]; other site 596154011689 Protein of unknown function, DUF488; Region: DUF488; cl01246 596154011690 Uncharacterized conserved protein [Function unknown]; Region: COG2128 596154011691 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154011692 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 596154011693 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 596154011694 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 596154011695 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 596154011696 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 596154011697 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 596154011698 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 596154011699 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 596154011700 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 596154011701 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 596154011702 putative ligand binding site [chemical binding]; other site 596154011703 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 596154011704 trimer interface [polypeptide binding]; other site 596154011705 eyelet of channel; other site 596154011706 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 596154011707 putative substrate translocation pore; other site 596154011708 metabolite-proton symporter; Region: 2A0106; TIGR00883 596154011709 Protein of unknown function, DUF485; Region: DUF485; cl01231 596154011710 Sodium:solute symporter family; Region: SSF; cl00456 596154011711 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 596154011712 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 596154011713 active site 596154011714 substrate binding site [chemical binding]; other site 596154011715 catalytic site [active] 596154011716 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 596154011717 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 596154011718 ligand binding site [chemical binding]; other site 596154011719 flexible hinge region; other site 596154011720 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 596154011721 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 596154011722 metal binding triad; other site 596154011723 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154011724 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 596154011725 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 596154011726 putative deacylase active site [active] 596154011727 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 596154011728 active site 596154011729 catalytic residues [active] 596154011730 metal binding site [ion binding]; metal-binding site 596154011731 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 596154011732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011733 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 596154011734 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154011735 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154011736 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154011737 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 596154011738 carboxyltransferase (CT) interaction site; other site 596154011739 biotinylation site [posttranslational modification]; other site 596154011740 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 596154011741 enoyl-CoA hydratase; Provisional; Region: PRK05995 596154011742 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 596154011743 substrate binding site [chemical binding]; other site 596154011744 oxyanion hole (OAH) forming residues; other site 596154011745 trimer interface [polypeptide binding]; other site 596154011746 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 596154011747 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154011748 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154011749 AMP-binding domain protein; Validated; Region: PRK08315 596154011750 AMP-binding enzyme; Region: AMP-binding; cl15778 596154011751 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154011752 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 596154011753 Helix-turn-helix domain; Region: HTH_18; pfam12833 596154011754 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 596154011755 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 596154011756 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 596154011757 putative C-terminal domain interface [polypeptide binding]; other site 596154011758 putative GSH binding site (G-site) [chemical binding]; other site 596154011759 putative dimer interface [polypeptide binding]; other site 596154011760 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 596154011761 N-terminal domain interface [polypeptide binding]; other site 596154011762 dimer interface [polypeptide binding]; other site 596154011763 substrate binding pocket (H-site) [chemical binding]; other site 596154011764 choline dehydrogenase; Validated; Region: PRK02106 596154011765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011766 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 596154011767 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154011768 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 596154011769 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 596154011770 TM-ABC transporter signature motif; other site 596154011771 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 596154011772 TM-ABC transporter signature motif; other site 596154011773 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154011774 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 596154011775 Walker A/P-loop; other site 596154011776 ATP binding site [chemical binding]; other site 596154011777 Q-loop/lid; other site 596154011778 ABC transporter signature motif; other site 596154011779 Walker B; other site 596154011780 D-loop; other site 596154011781 H-loop/switch region; other site 596154011782 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154011783 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 596154011784 Walker A/P-loop; other site 596154011785 ATP binding site [chemical binding]; other site 596154011786 Q-loop/lid; other site 596154011787 ABC transporter signature motif; other site 596154011788 Walker B; other site 596154011789 D-loop; other site 596154011790 H-loop/switch region; other site 596154011791 choline dehydrogenase; Validated; Region: PRK02106 596154011792 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 596154011793 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 596154011794 AMP-binding enzyme; Region: AMP-binding; cl15778 596154011795 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 596154011796 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154011797 DNA-binding site [nucleotide binding]; DNA binding site 596154011798 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 596154011799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154011800 homodimer interface [polypeptide binding]; other site 596154011801 catalytic residue [active] 596154011802 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 596154011803 homodimer interface [polypeptide binding]; other site 596154011804 NAD binding site [chemical binding]; other site 596154011805 catalytic residues [active] 596154011806 substrate binding pocket [chemical binding]; other site 596154011807 flexible flap; other site 596154011808 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 596154011809 PAS fold; Region: PAS; pfam00989 596154011810 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 596154011811 putative active site [active] 596154011812 heme pocket [chemical binding]; other site 596154011813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154011814 metal binding site [ion binding]; metal-binding site 596154011815 active site 596154011816 I-site; other site 596154011817 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 596154011818 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 596154011819 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 596154011820 PAS domain; Region: PAS_9; pfam13426 596154011821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154011822 metal binding site [ion binding]; metal-binding site 596154011823 active site 596154011824 I-site; other site 596154011825 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 596154011826 hypothetical protein; Provisional; Region: PRK01842 596154011827 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 596154011828 Protein of unknown function (DUF421); Region: DUF421; cl00990 596154011829 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154011830 Helix-turn-helix domains; Region: HTH; cl00088 596154011831 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154011832 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 596154011833 active site pocket [active] 596154011834 oxyanion hole [active] 596154011835 catalytic triad [active] 596154011836 active site nucleophile [active] 596154011837 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 596154011838 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 596154011839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154011840 NMT1-like family; Region: NMT1_2; cl15260 596154011841 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154011842 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154011843 active site 596154011844 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 596154011845 NADP binding site [chemical binding]; other site 596154011846 homodimer interface [polypeptide binding]; other site 596154011847 active site 596154011848 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 596154011849 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 596154011850 dimer interface [polypeptide binding]; other site 596154011851 active site 596154011852 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 596154011853 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 596154011854 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 596154011855 active site clefts [active] 596154011856 zinc binding site [ion binding]; other site 596154011857 dimer interface [polypeptide binding]; other site 596154011858 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 596154011859 isovaleryl-CoA dehydrogenase; Region: PLN02519 596154011860 substrate binding site [chemical binding]; other site 596154011861 FAD binding site [chemical binding]; other site 596154011862 catalytic base [active] 596154011863 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 596154011864 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 596154011865 DNA binding residues [nucleotide binding] 596154011866 putative dimer interface [polypeptide binding]; other site 596154011867 ABC transporter ATPase component; Reviewed; Region: PRK11147 596154011868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154011869 Walker A/P-loop; other site 596154011870 ATP binding site [chemical binding]; other site 596154011871 Q-loop/lid; other site 596154011872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154011873 Q-loop/lid; other site 596154011874 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 596154011875 ABC transporter signature motif; other site 596154011876 Walker B; other site 596154011877 D-loop; other site 596154011878 ABC transporter; Region: ABC_tran_2; pfam12848 596154011879 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 596154011880 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 596154011881 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 596154011882 active site 596154011883 phosphorylation site [posttranslational modification] 596154011884 intermolecular recognition site; other site 596154011885 dimerization interface [polypeptide binding]; other site 596154011886 CheB methylesterase; Region: CheB_methylest; pfam01339 596154011887 CheD chemotactic sensory transduction; Region: CheD; cl00810 596154011888 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 596154011889 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 596154011890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154011891 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 596154011892 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 596154011893 putative binding surface; other site 596154011894 active site 596154011895 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 596154011896 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 596154011897 ATP binding site [chemical binding]; other site 596154011898 Mg2+ binding site [ion binding]; other site 596154011899 G-X-G motif; other site 596154011900 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 596154011901 Response regulator receiver domain; Region: Response_reg; pfam00072 596154011902 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 596154011903 active site 596154011904 phosphorylation site [posttranslational modification] 596154011905 intermolecular recognition site; other site 596154011906 dimerization interface [polypeptide binding]; other site 596154011907 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 596154011908 active site 596154011909 phosphorylation site [posttranslational modification] 596154011910 intermolecular recognition site; other site 596154011911 dimerization interface [polypeptide binding]; other site 596154011912 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 596154011913 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 596154011914 ATP binding site [chemical binding]; other site 596154011915 Mg2+ binding site [ion binding]; other site 596154011916 G-X-G motif; other site 596154011917 response regulator; Provisional; Region: PRK09483 596154011918 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 596154011919 active site 596154011920 phosphorylation site [posttranslational modification] 596154011921 intermolecular recognition site; other site 596154011922 dimerization interface [polypeptide binding]; other site 596154011923 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 596154011924 DNA binding residues [nucleotide binding] 596154011925 dimerization interface [polypeptide binding]; other site 596154011926 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 596154011927 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 596154011928 FliP family; Region: FliP; cl00593 596154011929 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 596154011930 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 596154011931 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 596154011932 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 596154011933 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 596154011934 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 596154011935 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 596154011936 Flagellar FliJ protein; Region: FliJ; cl09161 596154011937 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 596154011938 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 596154011939 Walker A motif/ATP binding site; other site 596154011940 Walker B motif; other site 596154011941 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 596154011942 Flagellar assembly protein FliH; Region: FliH; pfam02108 596154011943 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 596154011944 MgtE intracellular N domain; Region: MgtE_N; cl15244 596154011945 FliG C-terminal domain; Region: FliG_C; pfam01706 596154011946 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 596154011947 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 596154011948 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 596154011949 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 596154011950 Flagellar protein FliT; Region: FliT; cl05125 596154011951 Flagellar protein FliS; Region: FliS; cl00654 596154011952 flagellar capping protein; Reviewed; Region: fliD; PRK08032 596154011953 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 596154011954 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 596154011955 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 596154011956 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 596154011957 flagellin; Provisional; Region: PRK12806 596154011958 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 596154011959 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 596154011960 flagellin; Provisional; Region: PRK12806 596154011961 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 596154011962 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 596154011963 Rhamnan synthesis protein F; Region: RgpF; cl01529 596154011964 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 596154011965 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 596154011966 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 596154011967 Probable Catalytic site; other site 596154011968 metal-binding site 596154011969 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 596154011970 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 596154011971 active site 596154011972 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154011973 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 596154011974 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 596154011975 flagellar motor protein MotB; Validated; Region: motB; PRK09041 596154011976 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154011977 ligand binding site [chemical binding]; other site 596154011978 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 596154011979 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 596154011980 active site 596154011981 phosphorylation site [posttranslational modification] 596154011982 intermolecular recognition site; other site 596154011983 dimerization interface [polypeptide binding]; other site 596154011984 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 596154011985 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 596154011986 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 596154011987 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 596154011988 FHIPEP family; Region: FHIPEP; pfam00771 596154011989 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 596154011990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154011991 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 596154011992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 596154011993 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 596154011994 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 596154011995 DNA binding residues [nucleotide binding] 596154011996 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 596154011997 SAF-like; Region: SAF_2; pfam13144 596154011998 SAF domain; Region: SAF; cl00555 596154011999 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 596154012000 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 596154012001 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 596154012002 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 596154012003 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 596154012004 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 596154012005 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 596154012006 FlgD Ig-like domain; Region: FlgD_ig; cl15790 596154012007 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 596154012008 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 596154012009 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 596154012010 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 596154012011 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 596154012012 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 596154012013 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 596154012014 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 596154012015 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 596154012016 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 596154012017 Flagellar L-ring protein; Region: FlgH; cl00905 596154012018 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 596154012019 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 596154012020 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 596154012021 Rod binding protein; Region: Rod-binding; cl01626 596154012022 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 596154012023 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 596154012024 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 596154012025 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 596154012026 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 596154012027 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 596154012028 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 596154012029 FMN binding site [chemical binding]; other site 596154012030 substrate binding site [chemical binding]; other site 596154012031 putative catalytic residue [active] 596154012032 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 596154012033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154012034 DNA-binding site [nucleotide binding]; DNA binding site 596154012035 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 596154012036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154012037 homodimer interface [polypeptide binding]; other site 596154012038 catalytic residue [active] 596154012039 LysE type translocator; Region: LysE; cl00565 596154012040 EamA-like transporter family; Region: EamA; cl01037 596154012041 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 596154012042 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 596154012043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154012044 homodimer interface [polypeptide binding]; other site 596154012045 catalytic residue [active] 596154012046 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 596154012047 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 596154012048 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 596154012049 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 596154012050 tetramer interface [polypeptide binding]; other site 596154012051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154012052 catalytic residue [active] 596154012053 Putative cyclase; Region: Cyclase; cl00814 596154012054 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154012055 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 596154012056 putative ligand binding site [chemical binding]; other site 596154012057 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 596154012058 NAD(P) binding site [chemical binding]; other site 596154012059 active site 596154012060 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 596154012061 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 596154012062 catalytic core [active] 596154012063 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154012064 metal binding site [ion binding]; metal-binding site 596154012065 active site 596154012066 I-site; other site 596154012067 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 596154012068 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 596154012069 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 596154012070 N-terminal plug; other site 596154012071 ligand-binding site [chemical binding]; other site 596154012072 Creatinine amidohydrolase; Region: Creatininase; cl00618 596154012073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012074 NMT1-like family; Region: NMT1_2; cl15260 596154012075 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 596154012076 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 596154012077 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 596154012078 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 596154012079 DsbD alpha interface [polypeptide binding]; other site 596154012080 catalytic residues [active] 596154012081 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 596154012082 putative catalytic residue [active] 596154012083 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 596154012084 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 596154012085 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 596154012086 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 596154012087 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 596154012088 substrate binding site [chemical binding]; other site 596154012089 active site 596154012090 primosome assembly protein PriA; Validated; Region: PRK05580 596154012091 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 596154012092 ATP binding site [chemical binding]; other site 596154012093 putative Mg++ binding site [ion binding]; other site 596154012094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154012095 beta-ketothiolase; Provisional; Region: PRK09051 596154012096 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 596154012097 dimer interface [polypeptide binding]; other site 596154012098 active site 596154012099 enoyl-CoA hydratase; Provisional; Region: PRK06688 596154012100 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 596154012101 substrate binding site [chemical binding]; other site 596154012102 oxyanion hole (OAH) forming residues; other site 596154012103 trimer interface [polypeptide binding]; other site 596154012104 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 596154012105 AMP-binding enzyme; Region: AMP-binding; cl15778 596154012106 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154012107 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 596154012108 Walker A/P-loop; other site 596154012109 ATP binding site [chemical binding]; other site 596154012110 Q-loop/lid; other site 596154012111 ABC transporter signature motif; other site 596154012112 Walker B; other site 596154012113 D-loop; other site 596154012114 H-loop/switch region; other site 596154012115 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154012116 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 596154012117 putative ligand binding site [chemical binding]; other site 596154012118 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 596154012119 TM-ABC transporter signature motif; other site 596154012120 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 596154012121 TM-ABC transporter signature motif; other site 596154012122 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154012123 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 596154012124 Walker A/P-loop; other site 596154012125 ATP binding site [chemical binding]; other site 596154012126 Q-loop/lid; other site 596154012127 ABC transporter signature motif; other site 596154012128 Walker B; other site 596154012129 D-loop; other site 596154012130 H-loop/switch region; other site 596154012131 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154012132 Helix-turn-helix domains; Region: HTH; cl00088 596154012133 Membrane transport protein; Region: Mem_trans; cl09117 596154012134 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 596154012135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154012136 Family description; Region: UvrD_C_2; cl15862 596154012137 glycogen branching enzyme; Provisional; Region: PRK05402 596154012138 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 596154012139 substrate binding site [chemical binding]; other site 596154012140 dimerization interface [polypeptide binding]; other site 596154012141 active site 596154012142 calcium binding site [ion binding]; other site 596154012143 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 596154012144 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 596154012145 Sulfatase; Region: Sulfatase; cl10460 596154012146 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 596154012147 active site 596154012148 metal binding site [ion binding]; metal-binding site 596154012149 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 596154012150 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154012151 putative active site [active] 596154012152 putative metal binding site [ion binding]; other site 596154012153 hypothetical protein; Provisional; Region: PRK06126 596154012154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012155 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 596154012156 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 596154012157 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 596154012158 trimer interface [polypeptide binding]; other site 596154012159 eyelet of channel; other site 596154012160 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154012161 DNA-binding site [nucleotide binding]; DNA binding site 596154012162 FCD domain; Region: FCD; cl11656 596154012163 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 596154012164 Ligand Binding Site [chemical binding]; other site 596154012165 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 596154012166 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 596154012167 Putative zinc ribbon domain; Region: DUF164; pfam02591 596154012168 PAS domain S-box; Region: sensory_box; TIGR00229 596154012169 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 596154012170 putative active site [active] 596154012171 heme pocket [chemical binding]; other site 596154012172 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 596154012173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012174 NMT1-like family; Region: NMT1_2; cl15260 596154012175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012176 NMT1-like family; Region: NMT1_2; cl15260 596154012177 hypothetical protein; Validated; Region: PRK06201 596154012178 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 596154012179 Transcriptional regulators [Transcription]; Region: FadR; COG2186 596154012180 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154012181 DNA-binding site [nucleotide binding]; DNA binding site 596154012182 FCD domain; Region: FCD; cl11656 596154012183 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 596154012184 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 596154012185 putative acyl-acceptor binding pocket; other site 596154012186 FtsH Extracellular; Region: FtsH_ext; pfam06480 596154012187 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 596154012188 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 596154012189 Walker A motif; other site 596154012190 ATP binding site [chemical binding]; other site 596154012191 Walker B motif; other site 596154012192 arginine finger; other site 596154012193 Peptidase family M41; Region: Peptidase_M41; pfam01434 596154012194 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154012195 active site 596154012196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154012197 active site 596154012198 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 596154012199 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 596154012200 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 596154012201 putative NAD(P) binding site [chemical binding]; other site 596154012202 putative substrate binding site [chemical binding]; other site 596154012203 catalytic Zn binding site [ion binding]; other site 596154012204 structural Zn binding site [ion binding]; other site 596154012205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012206 NMT1-like family; Region: NMT1_2; cl15260 596154012207 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 596154012208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012209 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154012210 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 596154012211 FIST N domain; Region: FIST; cl10701 596154012212 FIST C domain; Region: FIST_C; pfam10442 596154012213 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 596154012214 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 596154012215 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 596154012216 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 596154012217 HipA N-terminal domain; Region: Couple_hipA; cl11853 596154012218 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 596154012219 HipA-like N-terminal domain; Region: HipA_N; pfam07805 596154012220 HipA-like C-terminal domain; Region: HipA_C; pfam07804 596154012221 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 596154012222 non-specific DNA binding site [nucleotide binding]; other site 596154012223 salt bridge; other site 596154012224 sequence-specific DNA binding site [nucleotide binding]; other site 596154012225 Helix-turn-helix domains; Region: HTH; cl00088 596154012226 Winged helix-turn helix; Region: HTH_29; pfam13551 596154012227 Integrase core domain; Region: rve; cl01316 596154012228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 596154012229 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 596154012230 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 596154012231 Winged helix-turn helix; Region: HTH_29; pfam13551 596154012232 Integrase core domain; Region: rve; cl01316 596154012233 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 596154012234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012235 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 596154012236 NAD(P) binding site [chemical binding]; other site 596154012237 active site 596154012238 putative transposase OrfB; Reviewed; Region: PHA02517 596154012239 HTH-like domain; Region: HTH_21; pfam13276 596154012240 Integrase core domain; Region: rve; cl01316 596154012241 Integrase core domain; Region: rve_3; cl15866 596154012242 Helix-turn-helix domains; Region: HTH; cl00088 596154012243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 596154012244 Helix-turn-helix domains; Region: HTH; cl00088 596154012245 Integrase core domain; Region: rve; cl01316 596154012246 transposase/IS protein; Provisional; Region: PRK09183 596154012247 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 596154012248 Walker A motif; other site 596154012249 ATP binding site [chemical binding]; other site 596154012250 Walker B motif; other site 596154012251 arginine finger; other site 596154012252 Cytochrome c; Region: Cytochrom_C; cl11414 596154012253 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 596154012254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012255 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 596154012256 putative hydrophobic ligand binding site [chemical binding]; other site 596154012257 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 596154012258 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 596154012259 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 596154012260 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 596154012261 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 596154012262 catalytic loop [active] 596154012263 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 596154012264 iron binding site [ion binding]; other site 596154012265 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 596154012266 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 596154012267 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 596154012268 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 596154012269 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 596154012270 MoxR-like ATPases [General function prediction only]; Region: COG0714 596154012271 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 596154012272 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 596154012273 putative hydrophobic ligand binding site [chemical binding]; other site 596154012274 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 596154012275 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 596154012276 XdhC Rossmann domain; Region: XdhC_C; pfam13478 596154012277 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 596154012278 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 596154012279 Ligand binding site; other site 596154012280 metal-binding site 596154012281 Helix-turn-helix domains; Region: HTH; cl00088 596154012282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012283 NMT1-like family; Region: NMT1_2; cl15260 596154012284 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 596154012285 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 596154012286 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 596154012287 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154012288 active site 596154012289 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 596154012290 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 596154012291 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 596154012292 substrate binding site [chemical binding]; other site 596154012293 oxyanion hole (OAH) forming residues; other site 596154012294 trimer interface [polypeptide binding]; other site 596154012295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012296 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154012297 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 596154012298 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 596154012299 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 596154012300 dimer interface [polypeptide binding]; other site 596154012301 active site 596154012302 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154012303 classical (c) SDRs; Region: SDR_c; cd05233 596154012304 NAD(P) binding site [chemical binding]; other site 596154012305 active site 596154012306 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 596154012307 AMP-binding enzyme; Region: AMP-binding; cl15778 596154012308 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154012309 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 596154012310 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 596154012311 Walker A/P-loop; other site 596154012312 ATP binding site [chemical binding]; other site 596154012313 Q-loop/lid; other site 596154012314 ABC transporter signature motif; other site 596154012315 Walker B; other site 596154012316 D-loop; other site 596154012317 H-loop/switch region; other site 596154012318 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 596154012319 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 596154012320 TM-ABC transporter signature motif; other site 596154012321 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 596154012322 TM-ABC transporter signature motif; other site 596154012323 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 596154012324 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 596154012325 ligand binding site [chemical binding]; other site 596154012326 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 596154012327 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 596154012328 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 596154012329 DNA binding site [nucleotide binding] 596154012330 Int/Topo IB signature motif; other site 596154012331 active site 596154012332 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 596154012333 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 596154012334 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 596154012335 Int/Topo IB signature motif; other site 596154012336 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 596154012337 Putative transposase; Region: Y2_Tnp; pfam04986 596154012338 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 596154012339 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 596154012340 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 596154012341 alphaNTD homodimer interface [polypeptide binding]; other site 596154012342 alphaNTD - beta interaction site [polypeptide binding]; other site 596154012343 alphaNTD - beta' interaction site [polypeptide binding]; other site 596154012344 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 596154012345 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 596154012346 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 596154012347 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 596154012348 RNA binding surface [nucleotide binding]; other site 596154012349 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 596154012350 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 596154012351 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 596154012352 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 596154012353 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 596154012354 SecY translocase; Region: SecY; pfam00344 596154012355 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 596154012356 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 596154012357 23S rRNA binding site [nucleotide binding]; other site 596154012358 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 596154012359 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 596154012360 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 596154012361 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 596154012362 5S rRNA interface [nucleotide binding]; other site 596154012363 23S rRNA interface [nucleotide binding]; other site 596154012364 L5 interface [polypeptide binding]; other site 596154012365 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 596154012366 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 596154012367 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 596154012368 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 596154012369 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 596154012370 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 596154012371 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 596154012372 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 596154012373 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 596154012374 KOW motif; Region: KOW; cl00354 596154012375 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 596154012376 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 596154012377 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 596154012378 Helix-turn-helix domains; Region: HTH; cl00088 596154012379 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 596154012380 glycerol kinase; Provisional; Region: glpK; PRK00047 596154012381 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 596154012382 N- and C-terminal domain interface [polypeptide binding]; other site 596154012383 active site 596154012384 MgATP binding site [chemical binding]; other site 596154012385 catalytic site [active] 596154012386 metal binding site [ion binding]; metal-binding site 596154012387 glycerol binding site [chemical binding]; other site 596154012388 homotetramer interface [polypeptide binding]; other site 596154012389 homodimer interface [polypeptide binding]; other site 596154012390 FBP binding site [chemical binding]; other site 596154012391 protein IIAGlc interface [polypeptide binding]; other site 596154012392 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 596154012393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012394 CotH protein; Region: CotH; pfam08757 596154012395 UbiA prenyltransferase family; Region: UbiA; cl00337 596154012396 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 596154012397 dimerization interface [polypeptide binding]; other site 596154012398 DPS ferroxidase diiron center [ion binding]; other site 596154012399 ion pore; other site 596154012400 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 596154012401 Helix-turn-helix domains; Region: HTH; cl00088 596154012402 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 596154012403 dimerization interface [polypeptide binding]; other site 596154012404 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 596154012405 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 596154012406 generic binding surface II; other site 596154012407 ssDNA binding site; other site 596154012408 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 596154012409 ATP binding site [chemical binding]; other site 596154012410 putative Mg++ binding site [ion binding]; other site 596154012411 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 596154012412 nucleotide binding region [chemical binding]; other site 596154012413 ATP-binding site [chemical binding]; other site 596154012414 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 596154012415 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 596154012416 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 596154012417 Zn2+ binding site [ion binding]; other site 596154012418 Mg2+ binding site [ion binding]; other site 596154012419 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 596154012420 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 596154012421 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 596154012422 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 596154012423 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 596154012424 NMT1-like family; Region: NMT1_2; cl15260 596154012425 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154012426 Helix-turn-helix domains; Region: HTH; cl00088 596154012427 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 596154012428 dimerization interface [polypeptide binding]; other site 596154012429 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 596154012430 ligand binding site [chemical binding]; other site 596154012431 active site 596154012432 UGI interface [polypeptide binding]; other site 596154012433 catalytic site [active] 596154012434 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 596154012435 active site 596154012436 ribulose/triose binding site [chemical binding]; other site 596154012437 phosphate binding site [ion binding]; other site 596154012438 substrate (anthranilate) binding pocket [chemical binding]; other site 596154012439 product (indole) binding pocket [chemical binding]; other site 596154012440 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 596154012441 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 596154012442 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 596154012443 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 596154012444 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 596154012445 glutamine binding [chemical binding]; other site 596154012446 catalytic triad [active] 596154012447 putative transposase OrfB; Reviewed; Region: PHA02517 596154012448 HTH-like domain; Region: HTH_21; pfam13276 596154012449 Integrase core domain; Region: rve; cl01316 596154012450 Integrase core domain; Region: rve_3; cl15866 596154012451 Helix-turn-helix domains; Region: HTH; cl00088 596154012452 RES domain; Region: RES; cl02411 596154012453 Chorismate mutase type II; Region: CM_2; cl00693 596154012454 anthranilate synthase component I; Provisional; Region: PRK13565 596154012455 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 596154012456 chorismate binding enzyme; Region: Chorismate_bind; cl10555 596154012457 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 596154012458 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 596154012459 dimerization interface [polypeptide binding]; other site 596154012460 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154012461 dimer interface [polypeptide binding]; other site 596154012462 putative CheW interface [polypeptide binding]; other site 596154012463 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 596154012464 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 596154012465 PAS domain S-box; Region: sensory_box; TIGR00229 596154012466 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 596154012467 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 596154012468 PAS domain; Region: PAS_9; pfam13426 596154012469 putative active site [active] 596154012470 heme pocket [chemical binding]; other site 596154012471 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154012472 metal binding site [ion binding]; metal-binding site 596154012473 active site 596154012474 I-site; other site 596154012475 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 596154012476 phosphoglycolate phosphatase; Provisional; Region: PRK13222 596154012477 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 596154012478 motif II; other site 596154012479 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 596154012480 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 596154012481 substrate binding site [chemical binding]; other site 596154012482 hexamer interface [polypeptide binding]; other site 596154012483 metal binding site [ion binding]; metal-binding site 596154012484 Protein of unknown function (DUF525); Region: DUF525; cl01119 596154012485 Site-specific recombinase; Region: SpecificRecomb; cl15411 596154012486 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 596154012487 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 596154012488 thiamine monophosphate kinase; Provisional; Region: PRK05731 596154012489 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 596154012490 ATP binding site [chemical binding]; other site 596154012491 dimerization interface [polypeptide binding]; other site 596154012492 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 596154012493 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 596154012494 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 596154012495 Type II transport protein GspH; Region: GspH; pfam12019 596154012496 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 596154012497 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 596154012498 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 596154012499 active site 596154012500 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154012501 Helix-turn-helix domains; Region: HTH; cl00088 596154012502 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 596154012503 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 596154012504 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 596154012505 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 596154012506 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 596154012507 NAD binding site [chemical binding]; other site 596154012508 homotetramer interface [polypeptide binding]; other site 596154012509 homodimer interface [polypeptide binding]; other site 596154012510 substrate binding site [chemical binding]; other site 596154012511 active site 596154012512 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 596154012513 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 596154012514 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 596154012515 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 596154012516 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 596154012517 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154012518 Walker A/P-loop; other site 596154012519 ATP binding site [chemical binding]; other site 596154012520 Q-loop/lid; other site 596154012521 ABC transporter signature motif; other site 596154012522 Walker B; other site 596154012523 D-loop; other site 596154012524 H-loop/switch region; other site 596154012525 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 596154012526 Walker A/P-loop; other site 596154012527 ATP binding site [chemical binding]; other site 596154012528 Q-loop/lid; other site 596154012529 ABC transporter signature motif; other site 596154012530 Walker B; other site 596154012531 D-loop; other site 596154012532 H-loop/switch region; other site 596154012533 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 596154012534 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154012535 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 596154012536 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 596154012537 ABC-2 type transporter; Region: ABC2_membrane; cl11417 596154012538 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 596154012539 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 596154012540 dimer interaction site [polypeptide binding]; other site 596154012541 substrate-binding tunnel; other site 596154012542 active site 596154012543 catalytic site [active] 596154012544 substrate binding site [chemical binding]; other site 596154012545 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 596154012546 propionate/acetate kinase; Provisional; Region: PRK12379 596154012547 Acetokinase family; Region: Acetate_kinase; cl01029 596154012548 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 596154012549 tetramer interfaces [polypeptide binding]; other site 596154012550 binuclear metal-binding site [ion binding]; other site 596154012551 Competence-damaged protein; Region: CinA; cl00666 596154012552 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 596154012553 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154012554 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154012555 dimer interface [polypeptide binding]; other site 596154012556 putative CheW interface [polypeptide binding]; other site 596154012557 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 596154012558 methyl-accepting protein IV; Provisional; Region: PRK09793 596154012559 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 596154012560 dimerization interface [polypeptide binding]; other site 596154012561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154012562 metal binding site [ion binding]; metal-binding site 596154012563 active site 596154012564 I-site; other site 596154012565 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 596154012566 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 596154012567 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 596154012568 active site 596154012569 phosphorylation site [posttranslational modification] 596154012570 intermolecular recognition site; other site 596154012571 dimerization interface [polypeptide binding]; other site 596154012572 ANTAR domain; Region: ANTAR; cl04297 596154012573 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 596154012574 PAS domain; Region: PAS_9; pfam13426 596154012575 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 596154012576 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 596154012577 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 596154012578 SEC-C motif; Region: SEC-C; pfam02810 596154012579 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 596154012580 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 596154012581 THUMP domain; Region: THUMP; cl12076 596154012582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012583 Cache domain; Region: Cache_1; pfam02743 596154012584 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 596154012585 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154012586 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154012587 dimer interface [polypeptide binding]; other site 596154012588 putative CheW interface [polypeptide binding]; other site 596154012589 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 596154012590 active site 596154012591 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 596154012592 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 596154012593 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 596154012594 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 596154012595 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 596154012596 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 596154012597 Walker A/P-loop; other site 596154012598 ATP binding site [chemical binding]; other site 596154012599 Q-loop/lid; other site 596154012600 ABC transporter signature motif; other site 596154012601 Walker B; other site 596154012602 D-loop; other site 596154012603 H-loop/switch region; other site 596154012604 OstA-like protein; Region: OstA; cl00844 596154012605 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 596154012606 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 596154012607 catalytic residues [active] 596154012608 hinge region; other site 596154012609 alpha helical domain; other site 596154012610 Sporulation related domain; Region: SPOR; cl10051 596154012611 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 596154012612 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 596154012613 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154012614 active site 596154012615 HIGH motif; other site 596154012616 nucleotide binding site [chemical binding]; other site 596154012617 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 596154012618 KMSK motif region; other site 596154012619 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 596154012620 tRNA binding surface [nucleotide binding]; other site 596154012621 anticodon binding site; other site 596154012622 psiF repeat; Region: PsiF_repeat; pfam07769 596154012623 psiF repeat; Region: PsiF_repeat; pfam07769 596154012624 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 596154012625 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 596154012626 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 596154012627 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 596154012628 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 596154012629 PAS fold; Region: PAS_7; pfam12860 596154012630 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 596154012631 dimer interface [polypeptide binding]; other site 596154012632 phosphorylation site [posttranslational modification] 596154012633 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 596154012634 ATP binding site [chemical binding]; other site 596154012635 Mg2+ binding site [ion binding]; other site 596154012636 G-X-G motif; other site 596154012637 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 596154012638 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 596154012639 active site 596154012640 phosphorylation site [posttranslational modification] 596154012641 intermolecular recognition site; other site 596154012642 dimerization interface [polypeptide binding]; other site 596154012643 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 596154012644 DNA binding residues [nucleotide binding] 596154012645 dimerization interface [polypeptide binding]; other site 596154012646 LysR family transcriptional regulator; Provisional; Region: PRK14997 596154012647 Helix-turn-helix domains; Region: HTH; cl00088 596154012648 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 596154012649 putative effector binding pocket; other site 596154012650 dimerization interface [polypeptide binding]; other site 596154012651 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 596154012652 active site 596154012653 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 596154012654 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 596154012655 active site 1 [active] 596154012656 dimer interface [polypeptide binding]; other site 596154012657 hexamer interface [polypeptide binding]; other site 596154012658 active site 2 [active] 596154012659 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 596154012660 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 596154012661 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 596154012662 putative active site [active] 596154012663 putative dimer interface [polypeptide binding]; other site 596154012664 glutathione synthetase; Provisional; Region: PRK05246 596154012665 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 596154012666 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154012667 benzoate transporter; Region: benE; TIGR00843 596154012668 Benzoate membrane transport protein; Region: BenE; pfam03594 596154012669 potassium uptake protein; Region: kup; TIGR00794 596154012670 K+ potassium transporter; Region: K_trans; cl15781 596154012671 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 596154012672 Glutamate-cysteine ligase; Region: GshA; pfam08886 596154012673 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 596154012674 Cation transport protein; Region: TrkH; cl10514 596154012675 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 596154012676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012678 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 596154012679 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 596154012680 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 596154012681 putative catalytic cysteine [active] 596154012682 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 596154012683 Astacin (Peptidase family M12A); Region: Astacin; pfam01400 596154012684 Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to...; Region: ZnMc_astacin_like; cd04280 596154012685 active site 596154012686 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 596154012687 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 596154012688 Lipopolysaccharide-assembly; Region: LptE; cl01125 596154012689 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 596154012690 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 596154012691 HIGH motif; other site 596154012692 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 596154012693 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 596154012694 active site 596154012695 KMSKS motif; other site 596154012696 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 596154012697 tRNA binding surface [nucleotide binding]; other site 596154012698 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 596154012699 Mechanosensitive ion channel; Region: MS_channel; pfam00924 596154012700 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 596154012701 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154012702 NAD(P) binding site [chemical binding]; other site 596154012703 catalytic residues [active] 596154012704 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 596154012705 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154012706 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 596154012707 Walker A motif; other site 596154012708 ATP binding site [chemical binding]; other site 596154012709 Walker B motif; other site 596154012710 arginine finger; other site 596154012711 Helix-turn-helix domains; Region: HTH; cl00088 596154012712 Cytochrome c; Region: Cytochrom_C; cl11414 596154012713 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 596154012714 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 596154012715 putative active site [active] 596154012716 heme pocket [chemical binding]; other site 596154012717 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 596154012718 putative active site [active] 596154012719 heme pocket [chemical binding]; other site 596154012720 GAF domain; Region: GAF; cl15785 596154012721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154012722 metal binding site [ion binding]; metal-binding site 596154012723 active site 596154012724 I-site; other site 596154012725 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 596154012726 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 596154012727 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 596154012728 dihydrodipicolinate reductase; Provisional; Region: PRK00048 596154012729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012730 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 596154012731 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 596154012732 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 596154012733 metal binding site 2 [ion binding]; metal-binding site 596154012734 putative DNA binding helix; other site 596154012735 metal binding site 1 [ion binding]; metal-binding site 596154012736 dimer interface [polypeptide binding]; other site 596154012737 structural Zn2+ binding site [ion binding]; other site 596154012738 HPr kinase/phosphorylase; Provisional; Region: PRK05428 596154012739 DRTGG domain; Region: DRTGG; cl12147 596154012740 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 596154012741 Hpr binding site; other site 596154012742 active site 596154012743 homohexamer subunit interaction site [polypeptide binding]; other site 596154012744 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 596154012745 active site 596154012746 phosphorylation site [posttranslational modification] 596154012747 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 596154012748 30S subunit binding site; other site 596154012749 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 596154012750 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 596154012751 active site 596154012752 ATP binding site [chemical binding]; other site 596154012753 substrate binding site [chemical binding]; other site 596154012754 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 596154012755 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 596154012756 AIR carboxylase; Region: AIRC; cl00310 596154012757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012758 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 596154012759 NAD(P) binding site [chemical binding]; other site 596154012760 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154012761 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 596154012762 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 596154012763 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 596154012764 active site 596154012765 catalytic triad [active] 596154012766 oxyanion hole [active] 596154012767 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 596154012768 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 596154012769 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 596154012770 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 596154012771 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 596154012772 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 596154012773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 596154012774 Coenzyme A binding pocket [chemical binding]; other site 596154012775 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 596154012776 active site 596154012777 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 596154012778 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 596154012779 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 596154012780 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 596154012781 AMP-binding enzyme; Region: AMP-binding; cl15778 596154012782 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154012783 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 596154012784 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 596154012785 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 596154012786 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 596154012787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012788 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 596154012789 hypothetical protein; Provisional; Region: PRK08185 596154012790 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 596154012791 intersubunit interface [polypeptide binding]; other site 596154012792 active site 596154012793 zinc binding site [ion binding]; other site 596154012794 Na+ binding site [ion binding]; other site 596154012795 pyruvate kinase; Provisional; Region: PRK05826 596154012796 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 596154012797 domain interfaces; other site 596154012798 active site 596154012799 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 596154012800 proline aminopeptidase P II; Provisional; Region: PRK10879 596154012801 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 596154012802 active site 596154012803 enoyl-CoA hydratase; Provisional; Region: PRK06688 596154012804 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 596154012805 substrate binding site [chemical binding]; other site 596154012806 oxyanion hole (OAH) forming residues; other site 596154012807 trimer interface [polypeptide binding]; other site 596154012808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012809 NMT1-like family; Region: NMT1_2; cl15260 596154012810 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154012811 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154012812 thiolase; Provisional; Region: PRK06158 596154012813 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154012814 active site 596154012815 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 596154012816 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154012817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012818 NMT1-like family; Region: NMT1_2; cl15260 596154012819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154012820 Helix-turn-helix domains; Region: HTH; cl00088 596154012821 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 596154012822 putative dimerization interface [polypeptide binding]; other site 596154012823 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 596154012824 Substrate binding site; other site 596154012825 metal-binding site 596154012826 transketolase; Reviewed; Region: PRK12753 596154012827 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 596154012828 TPP-binding site [chemical binding]; other site 596154012829 dimer interface [polypeptide binding]; other site 596154012830 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 596154012831 PYR/PP interface [polypeptide binding]; other site 596154012832 dimer interface [polypeptide binding]; other site 596154012833 TPP binding site [chemical binding]; other site 596154012834 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 596154012835 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 596154012836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012837 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 596154012838 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 596154012839 Peptidase C26; Region: Peptidase_C26; pfam07722 596154012840 catalytic triad [active] 596154012841 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 596154012842 Helix-turn-helix domains; Region: HTH; cl00088 596154012843 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 596154012844 putative dimerization interface [polypeptide binding]; other site 596154012845 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 596154012846 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 596154012847 active site 596154012848 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 596154012849 classical (c) SDRs; Region: SDR_c; cd05233 596154012850 NAD(P) binding site [chemical binding]; other site 596154012851 active site 596154012852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012853 NMT1-like family; Region: NMT1_2; cl15260 596154012854 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 596154012855 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 596154012856 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 596154012857 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 596154012858 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 596154012859 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 596154012860 N-terminal plug; other site 596154012861 ligand-binding site [chemical binding]; other site 596154012862 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 596154012863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012864 NMT1-like family; Region: NMT1_2; cl15260 596154012865 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 596154012866 transcriptional regulator; Provisional; Region: PRK10632 596154012867 Helix-turn-helix domains; Region: HTH; cl00088 596154012868 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 596154012869 putative effector binding pocket; other site 596154012870 dimerization interface [polypeptide binding]; other site 596154012871 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 596154012872 short chain dehydrogenase; Provisional; Region: PRK06181 596154012873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012874 NAD(P) binding site [chemical binding]; other site 596154012875 active site 596154012876 DTW domain; Region: DTW; cl01221 596154012877 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154012878 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154012879 thiolase; Provisional; Region: PRK06158 596154012880 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 596154012881 active site 596154012882 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 596154012883 DUF35 OB-fold domain; Region: DUF35; pfam01796 596154012884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012885 NMT1-like family; Region: NMT1_2; cl15260 596154012886 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 596154012887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012888 CoA-ligase; Region: Ligase_CoA; cl02894 596154012889 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154012890 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 596154012891 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 596154012892 C-terminal domain interface [polypeptide binding]; other site 596154012893 GSH binding site (G-site) [chemical binding]; other site 596154012894 dimer interface [polypeptide binding]; other site 596154012895 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 596154012896 dimer interface [polypeptide binding]; other site 596154012897 N-terminal domain interface [polypeptide binding]; other site 596154012898 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 596154012899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012900 NAD(P) binding site [chemical binding]; other site 596154012901 active site 596154012902 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 596154012903 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 596154012904 DNA topoisomerase III; Provisional; Region: PRK14724 596154012905 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 596154012906 active site 596154012907 putative interdomain interaction site [polypeptide binding]; other site 596154012908 putative metal-binding site [ion binding]; other site 596154012909 putative nucleotide binding site [chemical binding]; other site 596154012910 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 596154012911 domain I; other site 596154012912 DNA binding groove [nucleotide binding] 596154012913 phosphate binding site [ion binding]; other site 596154012914 domain II; other site 596154012915 domain III; other site 596154012916 nucleotide binding site [chemical binding]; other site 596154012917 catalytic site [active] 596154012918 domain IV; other site 596154012919 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 596154012920 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 596154012921 SWIB/MDM2 domain; Region: SWIB; cl02489 596154012922 SET domain; Region: SET; cl02566 596154012923 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 596154012924 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 596154012925 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 596154012926 Sporulation related domain; Region: SPOR; cl10051 596154012927 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 596154012928 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 596154012929 putative NAD(P) binding site [chemical binding]; other site 596154012930 structural Zn binding site [ion binding]; other site 596154012931 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154012932 active site 2 [active] 596154012933 active site 1 [active] 596154012934 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 596154012935 active site 596154012936 catalytic site [active] 596154012937 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154012938 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 596154012939 putative ligand binding site [chemical binding]; other site 596154012940 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 596154012941 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 596154012942 AMP-binding enzyme; Region: AMP-binding; cl15778 596154012943 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154012944 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 596154012945 Helix-turn-helix domains; Region: HTH; cl00088 596154012946 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 596154012947 RES domain; Region: RES; cl02411 596154012948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154012949 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 596154012950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154012951 NMT1-like family; Region: NMT1_2; cl15260 596154012952 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 596154012953 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 596154012954 dimer interface [polypeptide binding]; other site 596154012955 phosphorylation site [posttranslational modification] 596154012956 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 596154012957 ATP binding site [chemical binding]; other site 596154012958 Mg2+ binding site [ion binding]; other site 596154012959 G-X-G motif; other site 596154012960 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 596154012961 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 596154012962 active site 596154012963 phosphorylation site [posttranslational modification] 596154012964 intermolecular recognition site; other site 596154012965 dimerization interface [polypeptide binding]; other site 596154012966 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 596154012967 DNA binding site [nucleotide binding] 596154012968 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 596154012969 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 596154012970 catalytic residue [active] 596154012971 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 596154012972 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 596154012973 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 596154012974 dimer interface [polypeptide binding]; other site 596154012975 conserved gate region; other site 596154012976 putative PBP binding loops; other site 596154012977 ABC-ATPase subunit interface; other site 596154012978 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 596154012979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154012980 Walker A/P-loop; other site 596154012981 ATP binding site [chemical binding]; other site 596154012982 Q-loop/lid; other site 596154012983 ABC transporter signature motif; other site 596154012984 Walker B; other site 596154012985 D-loop; other site 596154012986 H-loop/switch region; other site 596154012987 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 596154012988 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 596154012989 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 596154012990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154012991 DNA-binding site [nucleotide binding]; DNA binding site 596154012992 FCD domain; Region: FCD; cl11656 596154012993 Sulfatase; Region: Sulfatase; cl10460 596154012994 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 596154012995 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154012996 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 596154012997 NAD(P) binding site [chemical binding]; other site 596154012998 catalytic residues [active] 596154012999 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 596154013000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013001 FAD dependent oxidoreductase; Region: DAO; pfam01266 596154013002 alanine racemase; Reviewed; Region: alr; PRK00053 596154013003 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 596154013004 active site 596154013005 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 596154013006 substrate binding site [chemical binding]; other site 596154013007 catalytic residues [active] 596154013008 dimer interface [polypeptide binding]; other site 596154013009 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 596154013010 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 596154013011 Helix-turn-helix domains; Region: HTH; cl00088 596154013012 Helix-turn-helix domains; Region: HTH; cl00088 596154013013 recombinase A; Provisional; Region: recA; PRK09354 596154013014 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 596154013015 hexamer interface [polypeptide binding]; other site 596154013016 Walker A motif; other site 596154013017 ATP binding site [chemical binding]; other site 596154013018 Walker B motif; other site 596154013019 RecX family; Region: RecX; cl00936 596154013020 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 596154013021 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 596154013022 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 596154013023 Protein export membrane protein; Region: SecD_SecF; cl14618 596154013024 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 596154013025 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 596154013026 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 596154013027 Protein export membrane protein; Region: SecD_SecF; cl14618 596154013028 Preprotein translocase subunit; Region: YajC; cl00806 596154013029 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 596154013030 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 596154013031 dimer interface [polypeptide binding]; other site 596154013032 PYR/PP interface [polypeptide binding]; other site 596154013033 TPP binding site [chemical binding]; other site 596154013034 substrate binding site [chemical binding]; other site 596154013035 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 596154013036 TPP-binding site; other site 596154013037 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 596154013038 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 596154013039 Helix-turn-helix domains; Region: HTH; cl00088 596154013040 Transmembrane secretion effector; Region: MFS_3; pfam05977 596154013041 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 596154013042 putative substrate translocation pore; other site 596154013043 MltA specific insert domain; Region: MltA; cl08398 596154013044 3D domain; Region: 3D; cl01439 596154013045 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154013046 ligand binding site [chemical binding]; other site 596154013047 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 596154013048 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 596154013049 active site 596154013050 phosphorylation site [posttranslational modification] 596154013051 intermolecular recognition site; other site 596154013052 dimerization interface [polypeptide binding]; other site 596154013053 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 596154013054 DNA binding residues [nucleotide binding] 596154013055 dimerization interface [polypeptide binding]; other site 596154013056 PAS domain S-box; Region: sensory_box; TIGR00229 596154013057 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 596154013058 putative active site [active] 596154013059 heme pocket [chemical binding]; other site 596154013060 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 596154013061 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 596154013062 ATP binding site [chemical binding]; other site 596154013063 Mg2+ binding site [ion binding]; other site 596154013064 G-X-G motif; other site 596154013065 Predicted amidohydrolase [General function prediction only]; Region: COG0388 596154013066 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 596154013067 putative active site [active] 596154013068 catalytic triad [active] 596154013069 dimer interface [polypeptide binding]; other site 596154013070 TIGR02099 family protein; Region: TIGR02099 596154013071 AsmA-like C-terminal region; Region: AsmA_2; cl15864 596154013072 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 596154013073 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 596154013074 metal binding triad; other site 596154013075 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 596154013076 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 596154013077 metal binding triad; other site 596154013078 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 596154013079 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 596154013080 Protein export membrane protein; Region: SecD_SecF; cl14618 596154013081 putative glutathione S-transferase; Provisional; Region: PRK10357 596154013082 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 596154013083 putative C-terminal domain interface [polypeptide binding]; other site 596154013084 putative GSH binding site (G-site) [chemical binding]; other site 596154013085 putative dimer interface [polypeptide binding]; other site 596154013086 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 596154013087 dimer interface [polypeptide binding]; other site 596154013088 N-terminal domain interface [polypeptide binding]; other site 596154013089 putative substrate binding pocket (H-site) [chemical binding]; other site 596154013090 adenylosuccinate lyase; Provisional; Region: PRK09285 596154013091 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 596154013092 tetramer interface [polypeptide binding]; other site 596154013093 active site 596154013094 YaeQ protein; Region: YaeQ; cl01913 596154013095 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 596154013096 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 596154013097 Integral membrane protein TerC family; Region: TerC; cl10468 596154013098 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 596154013099 Helix-turn-helix domains; Region: HTH; cl00088 596154013100 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 596154013101 dimerization interface [polypeptide binding]; other site 596154013102 substrate binding pocket [chemical binding]; other site 596154013103 Membrane protein of unknown function; Region: DUF360; cl00850 596154013104 Peptidase family M48; Region: Peptidase_M48; cl12018 596154013105 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 596154013106 trimer interface [polypeptide binding]; other site 596154013107 dimer interface [polypeptide binding]; other site 596154013108 putative active site [active] 596154013109 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 596154013110 Sulfatase; Region: Sulfatase; cl10460 596154013111 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 596154013112 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154013113 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 596154013114 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 596154013115 phosphopeptide binding site; other site 596154013116 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 596154013117 active site 596154013118 Integral membrane protein TerC family; Region: TerC; cl10468 596154013119 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 596154013120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013121 CoA-ligase; Region: Ligase_CoA; cl02894 596154013122 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 596154013123 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154013124 CoA-ligase; Region: Ligase_CoA; cl02894 596154013125 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 596154013126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013127 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 596154013128 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 596154013129 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 596154013130 putative peptidoglycan binding site; other site 596154013131 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 596154013132 active site 596154013133 catalytic residues [active] 596154013134 metal binding site [ion binding]; metal-binding site 596154013135 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 596154013136 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 596154013137 putative active site [active] 596154013138 substrate binding site [chemical binding]; other site 596154013139 putative cosubstrate binding site; other site 596154013140 catalytic site [active] 596154013141 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 596154013142 substrate binding site [chemical binding]; other site 596154013143 AzlC protein; Region: AzlC; cl00570 596154013144 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 596154013145 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 596154013146 Phosphoglycerate kinase; Region: PGK; pfam00162 596154013147 substrate binding site [chemical binding]; other site 596154013148 hinge regions; other site 596154013149 ADP binding site [chemical binding]; other site 596154013150 catalytic site [active] 596154013151 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 596154013152 EamA-like transporter family; Region: EamA; cl01037 596154013153 EamA-like transporter family; Region: EamA; cl01037 596154013154 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 596154013155 active site 596154013156 dimer interface [polypeptide binding]; other site 596154013157 cell density-dependent motility repressor; Provisional; Region: PRK10082 596154013158 Helix-turn-helix domains; Region: HTH; cl00088 596154013159 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 596154013160 dimerization interface [polypeptide binding]; other site 596154013161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154013162 NMT1-like family; Region: NMT1_2; cl15260 596154013163 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 596154013164 active site 596154013165 Zn binding site [ion binding]; other site 596154013166 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 596154013167 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 596154013168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 596154013169 dimer interface [polypeptide binding]; other site 596154013170 putative CheW interface [polypeptide binding]; other site 596154013171 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 596154013172 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 596154013173 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 596154013174 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 596154013175 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 596154013176 putative substrate translocation pore; other site 596154013177 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 596154013178 dimer interface [polypeptide binding]; other site 596154013179 ssDNA binding site [nucleotide binding]; other site 596154013180 tetramer (dimer of dimers) interface [polypeptide binding]; other site 596154013181 glycolate transporter; Provisional; Region: PRK09695 596154013182 L-lactate permease; Region: Lactate_perm; cl00701 596154013183 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 596154013184 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 596154013185 Ligand Binding Site [chemical binding]; other site 596154013186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154013187 Helix-turn-helix domains; Region: HTH; cl00088 596154013188 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 596154013189 putative dimerization interface [polypeptide binding]; other site 596154013190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 596154013191 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 596154013192 NMT1-like family; Region: NMT1_2; cl15260 596154013193 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 596154013194 trimer interface [polypeptide binding]; other site 596154013195 eyelet of channel; other site 596154013196 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 596154013197 Helix-turn-helix domains; Region: HTH; cl00088 596154013198 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 596154013199 putative dimerization interface [polypeptide binding]; other site 596154013200 tricarballylate dehydrogenase; Validated; Region: PRK08274 596154013201 tricarballylate utilization protein B; Provisional; Region: PRK15033 596154013202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154013203 NMT1-like family; Region: NMT1_2; cl15260 596154013204 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 596154013205 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 596154013206 Walker A motif; other site 596154013207 ATP binding site [chemical binding]; other site 596154013208 Walker B motif; other site 596154013209 arginine finger; other site 596154013210 Helix-turn-helix domains; Region: HTH; cl00088 596154013211 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 596154013212 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 596154013213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154013214 NMT1-like family; Region: NMT1_2; cl15260 596154013215 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 596154013216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013217 CoA-ligase; Region: Ligase_CoA; cl02894 596154013218 ATP-grasp domain; Region: ATP-grasp_4; cl03087 596154013219 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 596154013220 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 596154013221 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 596154013222 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 596154013223 carboxyltransferase (CT) interaction site; other site 596154013224 biotinylation site [posttranslational modification]; other site 596154013225 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 596154013226 CoenzymeA binding site [chemical binding]; other site 596154013227 subunit interaction site [polypeptide binding]; other site 596154013228 PHB binding site; other site 596154013229 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 596154013230 nudix motif; other site 596154013231 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 596154013232 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 596154013233 N-terminal plug; other site 596154013234 ligand-binding site [chemical binding]; other site 596154013235 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 596154013236 CoenzymeA binding site [chemical binding]; other site 596154013237 subunit interaction site [polypeptide binding]; other site 596154013238 PHB binding site; other site 596154013239 Helix-turn-helix domains; Region: HTH; cl00088 596154013240 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154013241 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154013242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154013243 NMT1-like family; Region: NMT1_2; cl15260 596154013244 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154013245 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154013246 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 596154013247 active site 596154013248 catalytic site [active] 596154013249 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 596154013250 active site 2 [active] 596154013251 active site 1 [active] 596154013252 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 596154013253 AMP-binding enzyme; Region: AMP-binding; cl15778 596154013254 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 596154013255 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 596154013256 Lumazine binding domain; Region: Lum_binding; pfam00677 596154013257 Lumazine binding domain; Region: Lum_binding; pfam00677 596154013258 LysE type translocator; Region: LysE; cl00565 596154013259 sensor protein PhoQ; Provisional; Region: PRK10815 596154013260 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 596154013261 ATP binding site [chemical binding]; other site 596154013262 Mg2+ binding site [ion binding]; other site 596154013263 G-X-G motif; other site 596154013264 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 596154013265 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 596154013266 active site 596154013267 phosphorylation site [posttranslational modification] 596154013268 intermolecular recognition site; other site 596154013269 dimerization interface [polypeptide binding]; other site 596154013270 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 596154013271 DNA binding site [nucleotide binding] 596154013272 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 596154013273 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 596154013274 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 596154013275 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 596154013276 FAD binding pocket [chemical binding]; other site 596154013277 FAD binding motif [chemical binding]; other site 596154013278 phosphate binding motif [ion binding]; other site 596154013279 beta-alpha-beta structure motif; other site 596154013280 NAD binding pocket [chemical binding]; other site 596154013281 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 596154013282 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 596154013283 FlgD Ig-like domain; Region: FlgD_ig; cl15790 596154013284 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 596154013285 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 596154013286 FAD binding pocket [chemical binding]; other site 596154013287 conserved FAD binding motif [chemical binding]; other site 596154013288 phosphate binding motif [ion binding]; other site 596154013289 beta-alpha-beta structure motif; other site 596154013290 NAD binding pocket [chemical binding]; other site 596154013291 ApbE family; Region: ApbE; cl00643 596154013292 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 596154013293 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 596154013294 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 596154013295 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 596154013296 motif II; other site 596154013297 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 596154013298 Nitronate monooxygenase; Region: NMO; pfam03060 596154013299 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 596154013300 FMN binding site [chemical binding]; other site 596154013301 substrate binding site [chemical binding]; other site 596154013302 putative catalytic residue [active] 596154013303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154013304 NMT1-like family; Region: NMT1_2; cl15260 596154013305 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154013306 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154013307 active site 596154013308 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154013309 Helix-turn-helix domains; Region: HTH; cl00088 596154013310 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154013311 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154013312 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154013313 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 596154013314 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 596154013315 NADP binding site [chemical binding]; other site 596154013316 dimer interface [polypeptide binding]; other site 596154013317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 596154013318 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 596154013319 active site 596154013320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154013321 NMT1-like family; Region: NMT1_2; cl15260 596154013322 Transcriptional regulator [Transcription]; Region: IclR; COG1414 596154013323 Helix-turn-helix domains; Region: HTH; cl00088 596154013324 Bacterial transcriptional regulator; Region: IclR; pfam01614 596154013325 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 596154013326 CoA-transferase family III; Region: CoA_transf_3; pfam02515 596154013327 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 596154013328 Helix-turn-helix domains; Region: HTH; cl00088 596154013329 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 596154013330 dimerization interface [polypeptide binding]; other site 596154013331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 596154013332 NMT1-like family; Region: NMT1_2; cl15260 596154013333 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 596154013334 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 596154013335 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 596154013336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013337 spermidine synthase; Provisional; Region: PRK03612 596154013338 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 596154013339 S-adenosylmethionine binding site [chemical binding]; other site 596154013340 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 596154013341 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 596154013342 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 596154013343 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 596154013344 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 596154013345 Short C-terminal domain; Region: SHOCT; cl01373 596154013346 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 596154013347 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 596154013348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 596154013349 Helix-turn-helix domains; Region: HTH; cl00088 596154013350 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 596154013351 dimerization interface [polypeptide binding]; other site 596154013352 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 596154013353 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 596154013354 inhibitor-cofactor binding pocket; inhibition site 596154013355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 596154013356 catalytic residue [active] 596154013357 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 596154013358 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 596154013359 tetrameric interface [polypeptide binding]; other site 596154013360 NAD binding site [chemical binding]; other site 596154013361 catalytic residues [active] 596154013362 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 596154013363 MASE2 domain; Region: MASE2; pfam05230 596154013364 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154013365 metal binding site [ion binding]; metal-binding site 596154013366 active site 596154013367 I-site; other site 596154013368 Transcriptional regulators [Transcription]; Region: FadR; COG2186 596154013369 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 596154013370 DNA-binding site [nucleotide binding]; DNA binding site 596154013371 FCD domain; Region: FCD; cl11656 596154013372 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 596154013373 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 596154013374 putative ligand binding site [chemical binding]; other site 596154013375 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 596154013376 TM-ABC transporter signature motif; other site 596154013377 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 596154013378 TM-ABC transporter signature motif; other site 596154013379 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 596154013380 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 596154013381 Walker A/P-loop; other site 596154013382 ATP binding site [chemical binding]; other site 596154013383 Q-loop/lid; other site 596154013384 ABC transporter signature motif; other site 596154013385 Walker B; other site 596154013386 D-loop; other site 596154013387 H-loop/switch region; other site 596154013388 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 596154013389 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 596154013390 Walker A/P-loop; other site 596154013391 ATP binding site [chemical binding]; other site 596154013392 Q-loop/lid; other site 596154013393 ABC transporter signature motif; other site 596154013394 Walker B; other site 596154013395 D-loop; other site 596154013396 H-loop/switch region; other site 596154013397 allantoate amidohydrolase; Reviewed; Region: PRK12893 596154013398 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 596154013399 active site 596154013400 metal binding site [ion binding]; metal-binding site 596154013401 dimer interface [polypeptide binding]; other site 596154013402 Uncharacterized conserved protein [Function unknown]; Region: COG5476 596154013403 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 596154013404 MlrC C-terminus; Region: MlrC_C; pfam07171 596154013405 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 596154013406 malic enzyme; Reviewed; Region: PRK12862 596154013407 Malic enzyme, N-terminal domain; Region: malic; pfam00390 596154013408 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 596154013409 putative NAD(P) binding site [chemical binding]; other site 596154013410 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 596154013411 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 596154013412 active site 596154013413 barstar interaction site; other site 596154013414 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 596154013415 putative RNAase interaction site [polypeptide binding]; other site 596154013416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013417 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 596154013418 SurA N-terminal domain; Region: SurA_N_3; cl07813 596154013419 PPIC-type PPIASE domain; Region: Rotamase; cl08278 596154013420 PPIC-type PPIASE domain; Region: Rotamase; cl08278 596154013421 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 596154013422 Organic solvent tolerance protein; Region: OstA_C; pfam04453 596154013423 Phosphotransferase enzyme family; Region: APH; pfam01636 596154013424 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family 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: APH_ChoK_like; cd05120 596154013425 substrate binding site [chemical binding]; other site 596154013426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 596154013427 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 596154013428 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 596154013429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154013430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154013431 Walker A/P-loop; other site 596154013432 ATP binding site [chemical binding]; other site 596154013433 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 596154013434 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 596154013435 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 596154013436 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 596154013437 metal binding site [ion binding]; metal-binding site 596154013438 putative dimer interface [polypeptide binding]; other site 596154013439 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 596154013440 metal binding site [ion binding]; metal-binding site 596154013441 active site 596154013442 I-site; other site 596154013443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013444 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 596154013445 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 596154013446 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 596154013447 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 596154013448 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 596154013449 RNA/DNA binding site [nucleotide binding]; other site 596154013450 RRM dimerization site [polypeptide binding]; other site 596154013451 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 596154013452 RNA/DNA binding site [nucleotide binding]; other site 596154013453 RRM dimerization site [polypeptide binding]; other site 596154013454 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 596154013455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013456 NAD(P) binding site [chemical binding]; other site 596154013457 active site 596154013458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 596154013459 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 596154013460 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 596154013461 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 596154013462 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 596154013463 putative active site [active] 596154013464 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 596154013465 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 596154013466 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 596154013467 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 596154013468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013469 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 596154013470 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 596154013471 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 596154013472 active site 596154013473 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 596154013474 ligand binding site [chemical binding]; other site 596154013475 flexible hinge region; other site 596154013476 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 596154013477 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 596154013478 trmE is a tRNA modification GTPase; Region: trmE; cd04164 596154013479 G1 box; other site 596154013480 GTP/Mg2+ binding site [chemical binding]; other site 596154013481 Switch I region; other site 596154013482 G2 box; other site 596154013483 Switch II region; other site 596154013484 G3 box; other site 596154013485 G4 box; other site 596154013486 G5 box; other site 596154013487 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 596154013488 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 596154013489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 596154013490 substrate binding pocket [chemical binding]; other site 596154013491 membrane-bound complex binding site; other site 596154013492 hinge residues; other site 596154013493 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 596154013494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 596154013495 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 596154013496 Helix-turn-helix domains; Region: HTH; cl00088 596154013497 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 596154013498 dimerization interface [polypeptide binding]; other site 596154013499 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 596154013500 aspartate racemase; Region: asp_race; TIGR00035 596154013501 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 596154013502 SxDxEG motif; other site 596154013503 active site 596154013504 metal binding site [ion binding]; metal-binding site 596154013505 homopentamer interface [polypeptide binding]; other site 596154013506 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 596154013507 homodimer interface [polypeptide binding]; other site 596154013508 homotetramer interface [polypeptide binding]; other site 596154013509 active site pocket [active] 596154013510 cleavage site 596154013511 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 596154013512 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 596154013513 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 596154013514 dimer interface [polypeptide binding]; other site 596154013515 conserved gate region; other site 596154013516 putative PBP binding loops; other site 596154013517 ABC-ATPase subunit interface; other site 596154013518 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 596154013519 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 596154013520 dimer interface [polypeptide binding]; other site 596154013521 conserved gate region; other site 596154013522 putative PBP binding loops; other site 596154013523 ABC-ATPase subunit interface; other site 596154013524 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 596154013525 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 596154013526 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 596154013527 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 596154013528 Walker A/P-loop; other site 596154013529 ATP binding site [chemical binding]; other site 596154013530 Q-loop/lid; other site 596154013531 ABC transporter signature motif; other site 596154013532 Walker B; other site 596154013533 D-loop; other site 596154013534 H-loop/switch region; other site 596154013535 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154013536 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 596154013537 Walker A/P-loop; other site 596154013538 ATP binding site [chemical binding]; other site 596154013539 Q-loop/lid; other site 596154013540 ABC transporter signature motif; other site 596154013541 Walker B; other site 596154013542 D-loop; other site 596154013543 H-loop/switch region; other site 596154013544 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 596154013545 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 596154013546 catalytic nucleophile [active] 596154013547 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 596154013548 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 596154013549 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 596154013550 putative active site [active] 596154013551 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 596154013552 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 596154013553 membrane protein insertase; Provisional; Region: PRK01318 596154013554 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 596154013555 Haemolytic domain; Region: Haemolytic; cl00506 596154013556 Ribonuclease P; Region: Ribonuclease_P; cl00457 596154013557 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 596154013558 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154013559 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 596154013560 Walker A motif; other site 596154013561 ATP binding site [chemical binding]; other site 596154013562 Walker B motif; other site 596154013563 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 596154013564 TrwC relaxase; Region: TrwC; pfam08751 596154013565 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 596154013566 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154013567 Family description; Region: UvrD_C_2; cl15862 596154013568 YheO-like PAS domain; Region: PAS_6; pfam08348 596154013569 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 596154013570 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 596154013571 Histidine kinase; Region: HisKA_3; pfam07730 596154013572 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 596154013573 ATP binding site [chemical binding]; other site 596154013574 Mg2+ binding site [ion binding]; other site 596154013575 G-X-G motif; other site 596154013576 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 596154013577 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 596154013578 active site 596154013579 phosphorylation site [posttranslational modification] 596154013580 intermolecular recognition site; other site 596154013581 dimerization interface [polypeptide binding]; other site 596154013582 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 596154013583 DNA binding residues [nucleotide binding] 596154013584 dimerization interface [polypeptide binding]; other site 596154013585 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 596154013586 N-acetyl-D-glucosamine binding site [chemical binding]; other site 596154013587 catalytic residue [active] 596154013588 TraL protein; Region: TraL; cl06278 596154013589 TraE protein; Region: TraE; cl05060 596154013590 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 596154013591 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 596154013592 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 596154013593 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 596154013594 dimerization domain [polypeptide binding]; other site 596154013595 dimer interface [polypeptide binding]; other site 596154013596 catalytic residues [active] 596154013597 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 596154013598 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 596154013599 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 596154013600 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 596154013601 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 596154013602 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 596154013603 TraU protein; Region: TraU; cl06067 596154013604 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 596154013605 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154013606 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 596154013607 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154013608 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 596154013609 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 596154013610 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 596154013611 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 596154013612 Peptidase family M48; Region: Peptidase_M48; cl12018 596154013613 Peptidase family M48; Region: Peptidase_M48; cl12018 596154013614 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 596154013615 Fic/DOC family; Region: Fic; cl00960 596154013616 Zeta toxin; Region: Zeta_toxin; pfam06414 596154013617 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 596154013618 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 596154013619 IHF dimer interface [polypeptide binding]; other site 596154013620 IHF - DNA interface [nucleotide binding]; other site 596154013621 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 596154013622 ligand binding site [chemical binding]; other site 596154013623 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 596154013624 catalytic motif [active] 596154013625 Catalytic residue [active] 596154013626 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 596154013627 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 596154013628 catalytic motif [active] 596154013629 Catalytic residue [active] 596154013630 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 596154013631 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 596154013632 active site 596154013633 metal binding site [ion binding]; metal-binding site 596154013634 interdomain interaction site; other site 596154013635 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 596154013636 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 596154013637 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 596154013638 P-loop; other site 596154013639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 596154013640 Magnesium ion binding site [ion binding]; other site 596154013641 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 596154013642 Magnesium ion binding site [ion binding]; other site 596154013643 ParB-like nuclease domain; Region: ParBc; cl02129 596154013644 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 596154013645 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 596154013646 Replication initiator protein A; Region: RPA; cl02339 596154013647 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 596154013648 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 596154013649 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 596154013650 cofactor binding site; other site 596154013651 DNA binding site [nucleotide binding] 596154013652 substrate interaction site [chemical binding]; other site 596154013653 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 596154013654 PLD-like domain; Region: PLDc_2; pfam13091 596154013655 putative active site [active] 596154013656 catalytic site [active] 596154013657 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 596154013658 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 596154013659 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 596154013660 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 596154013661 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 596154013662 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 596154013663 Helix-turn-helix domains; Region: HTH; cl00088 596154013664 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 596154013665 dimer interface [polypeptide binding]; other site 596154013666 ssDNA binding site [nucleotide binding]; other site 596154013667 tetramer (dimer of dimers) interface [polypeptide binding]; other site 596154013668 Domain of unknown function (DUF932); Region: DUF932; cl12129 596154013669 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 596154013670 BH3 interacting domain (BID); Region: BID; pfam06393 596154013671 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 596154013672 S-adenosylmethionine binding site [chemical binding]; other site 596154013673 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 596154013674 MPN+ (JAMM) motif; other site 596154013675 Zinc-binding site [ion binding]; other site 596154013676 multiple promoter invertase; Provisional; Region: mpi; PRK13413 596154013677 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; cl02788 596154013678 catalytic residues [active] 596154013679 catalytic nucleophile [active]