-- dump date 20140619_145414 -- class Genbank::misc_feature -- table misc_feature_note -- id note 582744000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 582744000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 582744000003 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 582744000004 Walker A motif; other site 582744000005 ATP binding site [chemical binding]; other site 582744000006 Walker B motif; other site 582744000007 arginine finger; other site 582744000008 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 582744000009 DnaA box-binding interface [nucleotide binding]; other site 582744000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 582744000011 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 582744000012 putative DNA binding surface [nucleotide binding]; other site 582744000013 dimer interface [polypeptide binding]; other site 582744000014 beta-clamp/clamp loader binding surface; other site 582744000015 beta-clamp/translesion DNA polymerase binding surface; other site 582744000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 582744000017 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 582744000018 Mg2+ binding site [ion binding]; other site 582744000019 G-X-G motif; other site 582744000020 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 582744000021 anchoring element; other site 582744000022 dimer interface [polypeptide binding]; other site 582744000023 ATP binding site [chemical binding]; other site 582744000024 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 582744000025 active site 582744000026 putative metal-binding site [ion binding]; other site 582744000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 582744000028 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 582744000029 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 582744000030 HflX GTPase family; Region: HflX; cd01878 582744000031 G1 box; other site 582744000032 GTP/Mg2+ binding site [chemical binding]; other site 582744000033 Switch I region; other site 582744000034 G2 box; other site 582744000035 G3 box; other site 582744000036 Switch II region; other site 582744000037 G4 box; other site 582744000038 G5 box; other site 582744000039 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 582744000040 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 582744000041 ATP binding site [chemical binding]; other site 582744000042 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 582744000043 chromosome condensation membrane protein; Provisional; Region: PRK14196 582744000044 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 582744000045 malate:quinone oxidoreductase; Validated; Region: PRK05257 582744000046 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 582744000047 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 582744000048 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 582744000049 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 582744000050 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 582744000051 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744000052 putative substrate translocation pore; other site 582744000053 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 582744000054 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 582744000055 putative active site [active] 582744000056 heme pocket [chemical binding]; other site 582744000057 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 582744000058 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 582744000059 putative active site [active] 582744000060 heme pocket [chemical binding]; other site 582744000061 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 582744000062 putative active site [active] 582744000063 heme pocket [chemical binding]; other site 582744000064 PAS fold; Region: PAS_4; pfam08448 582744000065 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 582744000066 putative active site [active] 582744000067 heme pocket [chemical binding]; other site 582744000068 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 582744000069 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 582744000070 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 582744000071 PAS domain; Region: PAS_9; pfam13426 582744000072 putative active site [active] 582744000073 heme pocket [chemical binding]; other site 582744000074 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744000075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744000076 metal binding site [ion binding]; metal-binding site 582744000077 active site 582744000078 I-site; other site 582744000079 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 582744000080 Cytochrome c; Region: Cytochrom_C; cl11414 582744000081 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 582744000082 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 582744000083 Trp docking motif [polypeptide binding]; other site 582744000084 dimer interface [polypeptide binding]; other site 582744000085 active site 582744000086 small subunit binding site [polypeptide binding]; other site 582744000087 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 582744000088 GAF domain; Region: GAF; pfam01590 582744000089 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 582744000090 Walker A motif; other site 582744000091 ATP binding site [chemical binding]; other site 582744000092 Walker B motif; other site 582744000093 arginine finger; other site 582744000094 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744000095 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 582744000096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744000097 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 582744000098 dimerization interface [polypeptide binding]; other site 582744000099 coenzyme PQQ biosynthesis protein A; Provisional; Region: PRK14763 582744000100 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 582744000101 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 582744000102 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 582744000103 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 582744000104 S-adenosylmethionine binding site [chemical binding]; other site 582744000105 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 582744000106 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 582744000107 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 582744000108 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 582744000109 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 582744000110 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 582744000111 carboxyltransferase (CT) interaction site; other site 582744000112 biotinylation site [posttranslational modification]; other site 582744000113 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 582744000114 Dehydroquinase class II; Region: DHquinase_II; pfam01220 582744000115 trimer interface [polypeptide binding]; other site 582744000116 active site 582744000117 dimer interface [polypeptide binding]; other site 582744000118 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 582744000119 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 582744000120 catalytic residues [active] 582744000121 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 582744000122 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 582744000123 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 582744000124 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 582744000125 DsbD alpha interface [polypeptide binding]; other site 582744000126 catalytic residues [active] 582744000127 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 582744000128 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 582744000129 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 582744000130 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 582744000131 catalytic loop [active] 582744000132 iron binding site [ion binding]; other site 582744000133 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 582744000134 FAD binding pocket [chemical binding]; other site 582744000135 FAD binding motif [chemical binding]; other site 582744000136 phosphate binding motif [ion binding]; other site 582744000137 beta-alpha-beta structure motif; other site 582744000138 NAD binding pocket [chemical binding]; other site 582744000139 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 582744000140 HemY protein N-terminus; Region: HemY_N; pfam07219 582744000141 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 582744000142 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 582744000143 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 582744000144 active site 582744000145 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 582744000146 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 582744000147 domain interfaces; other site 582744000148 active site 582744000149 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 582744000150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744000151 active site 582744000152 phosphorylation site [posttranslational modification] 582744000153 intermolecular recognition site; other site 582744000154 dimerization interface [polypeptide binding]; other site 582744000155 LytTr DNA-binding domain; Region: LytTR; smart00850 582744000156 Histidine kinase; Region: His_kinase; pfam06580 582744000157 argininosuccinate lyase; Provisional; Region: PRK00855 582744000158 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 582744000159 active sites [active] 582744000160 tetramer interface [polypeptide binding]; other site 582744000161 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 582744000162 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 582744000163 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 582744000164 DXD motif; other site 582744000165 PilZ domain; Region: PilZ; pfam07238 582744000166 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 582744000167 cyclase homology domain; Region: CHD; cd07302 582744000168 metal binding site [ion binding]; metal-binding site 582744000169 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 582744000170 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 582744000171 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 582744000172 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 582744000173 FeS/SAM binding site; other site 582744000174 HemN C-terminal domain; Region: HemN_C; pfam06969 582744000175 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 582744000176 active site 582744000177 dimerization interface [polypeptide binding]; other site 582744000178 ribonuclease PH; Reviewed; Region: rph; PRK00173 582744000179 Ribonuclease PH; Region: RNase_PH_bact; cd11362 582744000180 hexamer interface [polypeptide binding]; other site 582744000181 active site 582744000182 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 582744000183 active site 582744000184 Protein kinase domain; Region: Pkinase; pfam00069 582744000185 Catalytic domain of Protein Kinases; Region: PKc; cd00180 582744000186 active site 582744000187 ATP binding site [chemical binding]; other site 582744000188 substrate binding site [chemical binding]; other site 582744000189 activation loop (A-loop); other site 582744000190 hypothetical protein; Provisional; Region: PRK11820 582744000191 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 582744000192 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 582744000193 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 582744000194 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 582744000195 catalytic site [active] 582744000196 G-X2-G-X-G-K; other site 582744000197 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 582744000198 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 582744000199 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 582744000200 Zn2+ binding site [ion binding]; other site 582744000201 Mg2+ binding site [ion binding]; other site 582744000202 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 582744000203 synthetase active site [active] 582744000204 NTP binding site [chemical binding]; other site 582744000205 metal binding site [ion binding]; metal-binding site 582744000206 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 582744000207 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 582744000208 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 582744000209 homotrimer interaction site [polypeptide binding]; other site 582744000210 putative active site [active] 582744000211 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 582744000212 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 582744000213 generic binding surface II; other site 582744000214 ssDNA binding site; other site 582744000215 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 582744000216 ATP binding site [chemical binding]; other site 582744000217 putative Mg++ binding site [ion binding]; other site 582744000218 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 582744000219 nucleotide binding region [chemical binding]; other site 582744000220 ATP-binding site [chemical binding]; other site 582744000221 Chorismate lyase; Region: Chor_lyase; cl01230 582744000222 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 582744000223 UbiA prenyltransferase family; Region: UbiA; pfam01040 582744000224 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 582744000225 23S rRNA interface [nucleotide binding]; other site 582744000226 L3 interface [polypeptide binding]; other site 582744000227 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 582744000228 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 582744000229 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 582744000230 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 582744000231 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 582744000232 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 582744000233 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 582744000234 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 582744000235 dimer interface [polypeptide binding]; other site 582744000236 active site 582744000237 citrylCoA binding site [chemical binding]; other site 582744000238 NADH binding [chemical binding]; other site 582744000239 cationic pore residues; other site 582744000240 oxalacetate/citrate binding site [chemical binding]; other site 582744000241 coenzyme A binding site [chemical binding]; other site 582744000242 catalytic triad [active] 582744000243 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 582744000244 putative peptidase; Provisional; Region: PRK11649 582744000245 Peptidase family M23; Region: Peptidase_M23; pfam01551 582744000246 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 582744000247 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 582744000248 active site 582744000249 HIGH motif; other site 582744000250 dimer interface [polypeptide binding]; other site 582744000251 KMSKS motif; other site 582744000252 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 582744000253 RNA binding surface [nucleotide binding]; other site 582744000254 ribosome maturation protein RimP; Reviewed; Region: PRK00092 582744000255 Sm and related proteins; Region: Sm_like; cl00259 582744000256 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 582744000257 putative oligomer interface [polypeptide binding]; other site 582744000258 putative RNA binding site [nucleotide binding]; other site 582744000259 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 582744000260 NusA N-terminal domain; Region: NusA_N; pfam08529 582744000261 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 582744000262 RNA binding site [nucleotide binding]; other site 582744000263 homodimer interface [polypeptide binding]; other site 582744000264 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 582744000265 G-X-X-G motif; other site 582744000266 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 582744000267 G-X-X-G motif; other site 582744000268 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 582744000269 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 582744000270 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 582744000271 translation initiation factor IF-2; Region: IF-2; TIGR00487 582744000272 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 582744000273 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 582744000274 G1 box; other site 582744000275 putative GEF interaction site [polypeptide binding]; other site 582744000276 GTP/Mg2+ binding site [chemical binding]; other site 582744000277 Switch I region; other site 582744000278 G2 box; other site 582744000279 G3 box; other site 582744000280 Switch II region; other site 582744000281 G4 box; other site 582744000282 G5 box; other site 582744000283 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 582744000284 Translation-initiation factor 2; Region: IF-2; pfam11987 582744000285 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 582744000286 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 582744000287 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 582744000288 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 582744000289 RNA binding site [nucleotide binding]; other site 582744000290 active site 582744000291 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 582744000292 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 582744000293 16S/18S rRNA binding site [nucleotide binding]; other site 582744000294 S13e-L30e interaction site [polypeptide binding]; other site 582744000295 25S rRNA binding site [nucleotide binding]; other site 582744000296 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 582744000297 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 582744000298 RNase E interface [polypeptide binding]; other site 582744000299 trimer interface [polypeptide binding]; other site 582744000300 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 582744000301 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 582744000302 RNase E interface [polypeptide binding]; other site 582744000303 trimer interface [polypeptide binding]; other site 582744000304 active site 582744000305 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 582744000306 putative nucleic acid binding region [nucleotide binding]; other site 582744000307 G-X-X-G motif; other site 582744000308 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 582744000309 RNA binding site [nucleotide binding]; other site 582744000310 domain interface; other site 582744000311 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 582744000312 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 582744000313 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 582744000314 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 582744000315 homodimer interface [polypeptide binding]; other site 582744000316 NADP binding site [chemical binding]; other site 582744000317 substrate binding site [chemical binding]; other site 582744000318 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 582744000319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744000320 active site 582744000321 phosphorylation site [posttranslational modification] 582744000322 intermolecular recognition site; other site 582744000323 dimerization interface [polypeptide binding]; other site 582744000324 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 582744000325 Walker A motif; other site 582744000326 ATP binding site [chemical binding]; other site 582744000327 Walker B motif; other site 582744000328 arginine finger; other site 582744000329 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744000330 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 582744000331 Sporulation related domain; Region: SPOR; pfam05036 582744000332 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 582744000333 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 582744000334 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744000335 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 582744000336 TPR motif; other site 582744000337 binding surface 582744000338 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 582744000339 binding surface 582744000340 TPR motif; other site 582744000341 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 582744000342 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 582744000343 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744000344 Walker A motif; other site 582744000345 ATP binding site [chemical binding]; other site 582744000346 Walker B motif; other site 582744000347 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 582744000348 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744000349 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744000350 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 582744000351 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 582744000352 ATP binding site [chemical binding]; other site 582744000353 substrate interface [chemical binding]; other site 582744000354 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 582744000355 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 582744000356 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 582744000357 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 582744000358 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 582744000359 HIGH motif; other site 582744000360 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 582744000361 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 582744000362 active site 582744000363 KMSKS motif; other site 582744000364 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 582744000365 tRNA binding surface [nucleotide binding]; other site 582744000366 anticodon binding site; other site 582744000367 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 582744000368 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 582744000369 CPxP motif; other site 582744000370 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 582744000371 active site residue [active] 582744000372 Bacterial sugar transferase; Region: Bac_transf; pfam02397 582744000373 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 582744000374 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 582744000375 Walker A motif; other site 582744000376 ATP binding site [chemical binding]; other site 582744000377 Walker B motif; other site 582744000378 arginine finger; other site 582744000379 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 582744000380 active site 582744000381 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 582744000382 intersubunit interface [polypeptide binding]; other site 582744000383 Zn2+ binding site [ion binding]; other site 582744000384 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 582744000385 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 582744000386 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 582744000387 substrate binding pocket [chemical binding]; other site 582744000388 membrane-bound complex binding site; other site 582744000389 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 582744000390 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 582744000391 Walker A/P-loop; other site 582744000392 ATP binding site [chemical binding]; other site 582744000393 Q-loop/lid; other site 582744000394 ABC transporter signature motif; other site 582744000395 Walker B; other site 582744000396 D-loop; other site 582744000397 H-loop/switch region; other site 582744000398 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 582744000399 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 582744000400 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 582744000401 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 582744000402 TolR protein; Region: tolR; TIGR02801 582744000403 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 582744000404 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 582744000405 dimer interface [polypeptide binding]; other site 582744000406 conserved gate region; other site 582744000407 putative PBP binding loops; other site 582744000408 ABC-ATPase subunit interface; other site 582744000409 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 582744000410 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 582744000411 dimer interface [polypeptide binding]; other site 582744000412 conserved gate region; other site 582744000413 putative PBP binding loops; other site 582744000414 ABC-ATPase subunit interface; other site 582744000415 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 582744000416 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; cl17432 582744000417 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 582744000418 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 582744000419 N-terminal plug; other site 582744000420 ligand-binding site [chemical binding]; other site 582744000421 choline dehydrogenase; Validated; Region: PRK02106 582744000422 lycopene cyclase; Region: lycopene_cycl; TIGR01789 582744000423 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 582744000424 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 582744000425 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 582744000426 NAD(P) binding site [chemical binding]; other site 582744000427 catalytic residues [active] 582744000428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744000429 Major Facilitator Superfamily; Region: MFS_1; pfam07690 582744000430 putative substrate translocation pore; other site 582744000431 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 582744000432 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 582744000433 dimer interface [polypeptide binding]; other site 582744000434 decamer (pentamer of dimers) interface [polypeptide binding]; other site 582744000435 catalytic triad [active] 582744000436 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 582744000437 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 582744000438 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 582744000439 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 582744000440 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 582744000441 Walker A/P-loop; other site 582744000442 ATP binding site [chemical binding]; other site 582744000443 Q-loop/lid; other site 582744000444 ABC transporter signature motif; other site 582744000445 Walker B; other site 582744000446 D-loop; other site 582744000447 H-loop/switch region; other site 582744000448 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 582744000449 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 582744000450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744000451 Walker A/P-loop; other site 582744000452 ATP binding site [chemical binding]; other site 582744000453 Q-loop/lid; other site 582744000454 ABC transporter signature motif; other site 582744000455 Walker B; other site 582744000456 D-loop; other site 582744000457 H-loop/switch region; other site 582744000458 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 582744000459 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 582744000460 N-terminal plug; other site 582744000461 ligand-binding site [chemical binding]; other site 582744000462 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 582744000463 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 582744000464 putative FMN binding site [chemical binding]; other site 582744000465 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 582744000466 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 582744000467 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 582744000468 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 582744000469 dimer interface [polypeptide binding]; other site 582744000470 active site 582744000471 non-prolyl cis peptide bond; other site 582744000472 insertion regions; other site 582744000473 PAS domain S-box; Region: sensory_box; TIGR00229 582744000474 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 582744000475 putative active site [active] 582744000476 heme pocket [chemical binding]; other site 582744000477 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 582744000478 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 582744000479 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744000480 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744000481 metal binding site [ion binding]; metal-binding site 582744000482 active site 582744000483 I-site; other site 582744000484 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 582744000485 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 582744000486 putative NAD(P) binding site [chemical binding]; other site 582744000487 active site 582744000488 putative substrate binding site [chemical binding]; other site 582744000489 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 582744000490 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 582744000491 Probable Catalytic site; other site 582744000492 metal-binding site 582744000493 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 582744000494 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 582744000495 active site 582744000496 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 582744000497 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 582744000498 Probable Catalytic site; other site 582744000499 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 582744000500 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 582744000501 Methyltransferase domain; Region: Methyltransf_23; pfam13489 582744000502 Methyltransferase domain; Region: Methyltransf_11; pfam08241 582744000503 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 582744000504 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 582744000505 ligand binding site; other site 582744000506 tetramer interface; other site 582744000507 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 582744000508 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 582744000509 NeuB family; Region: NeuB; pfam03102 582744000510 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 582744000511 NeuB binding interface [polypeptide binding]; other site 582744000512 putative substrate binding site [chemical binding]; other site 582744000513 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 582744000514 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 582744000515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744000516 Walker A/P-loop; other site 582744000517 ATP binding site [chemical binding]; other site 582744000518 Q-loop/lid; other site 582744000519 ABC transporter signature motif; other site 582744000520 Walker B; other site 582744000521 D-loop; other site 582744000522 H-loop/switch region; other site 582744000523 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 582744000524 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 582744000525 active site pocket [active] 582744000526 putative dimer interface [polypeptide binding]; other site 582744000527 putative cataytic base [active] 582744000528 cobalamin synthase; Reviewed; Region: cobS; PRK00235 582744000529 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 582744000530 catalytic core [active] 582744000531 TPR repeat; Region: TPR_11; pfam13414 582744000532 TPR repeat; Region: TPR_11; pfam13414 582744000533 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 582744000534 binding surface 582744000535 TPR motif; other site 582744000536 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744000537 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 582744000538 TPR repeat; Region: TPR_11; pfam13414 582744000539 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 582744000540 TPR motif; other site 582744000541 binding surface 582744000542 TPR repeat; Region: TPR_11; pfam13414 582744000543 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 582744000544 TPR motif; other site 582744000545 binding surface 582744000546 TPR repeat; Region: TPR_11; pfam13414 582744000547 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 582744000548 binding surface 582744000549 TPR motif; other site 582744000550 TPR repeat; Region: TPR_11; pfam13414 582744000551 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 582744000552 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 582744000553 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 582744000554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744000555 homodimer interface [polypeptide binding]; other site 582744000556 catalytic residue [active] 582744000557 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 582744000558 cobyric acid synthase; Provisional; Region: PRK00784 582744000559 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 582744000560 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 582744000561 catalytic triad [active] 582744000562 S4 domain; Region: S4_2; pfam13275 582744000563 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 582744000564 homotrimer interface [polypeptide binding]; other site 582744000565 Walker A motif; other site 582744000566 GTP binding site [chemical binding]; other site 582744000567 Walker B motif; other site 582744000568 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 582744000569 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 582744000570 cobalamin binding residues [chemical binding]; other site 582744000571 putative BtuC binding residues; other site 582744000572 dimer interface [polypeptide binding]; other site 582744000573 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 582744000574 putative FMN binding site [chemical binding]; other site 582744000575 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 582744000576 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 582744000577 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 582744000578 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 582744000579 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 582744000580 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 582744000581 catalytic triad [active] 582744000582 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 582744000583 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 582744000584 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 582744000585 homodimer interface [polypeptide binding]; other site 582744000586 Walker A motif; other site 582744000587 ATP binding site [chemical binding]; other site 582744000588 hydroxycobalamin binding site [chemical binding]; other site 582744000589 Walker B motif; other site 582744000590 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 582744000591 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 582744000592 N-terminal plug; other site 582744000593 ligand-binding site [chemical binding]; other site 582744000594 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 582744000595 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 582744000596 N-terminal plug; other site 582744000597 ligand-binding site [chemical binding]; other site 582744000598 TIGR02449 family protein; Region: TIGR02449 582744000599 Cell division protein ZapA; Region: ZapA; pfam05164 582744000600 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 582744000601 EVE domain; Region: EVE; cl00728 582744000602 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 582744000603 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 582744000604 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 582744000605 structural tetrad; other site 582744000606 threonine dehydratase; Reviewed; Region: PRK09224 582744000607 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 582744000608 tetramer interface [polypeptide binding]; other site 582744000609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744000610 catalytic residue [active] 582744000611 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 582744000612 putative Ile/Val binding site [chemical binding]; other site 582744000613 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 582744000614 putative Ile/Val binding site [chemical binding]; other site 582744000615 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 582744000616 tetramer (dimer of dimers) interface [polypeptide binding]; other site 582744000617 active site 582744000618 dimer interface [polypeptide binding]; other site 582744000619 transcriptional regulator PhoU; Provisional; Region: PRK11115 582744000620 PhoU domain; Region: PhoU; pfam01895 582744000621 PhoU domain; Region: PhoU; pfam01895 582744000622 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 582744000623 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 582744000624 polyphosphate kinase; Provisional; Region: PRK05443 582744000625 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 582744000626 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 582744000627 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 582744000628 putative domain interface [polypeptide binding]; other site 582744000629 putative active site [active] 582744000630 catalytic site [active] 582744000631 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 582744000632 putative domain interface [polypeptide binding]; other site 582744000633 putative active site [active] 582744000634 catalytic site [active] 582744000635 oxidative damage protection protein; Provisional; Region: PRK05408 582744000636 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 582744000637 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 582744000638 N-terminal plug; other site 582744000639 ligand-binding site [chemical binding]; other site 582744000640 superoxide dismutase; Provisional; Region: PRK10543 582744000641 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 582744000642 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 582744000643 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 582744000644 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 582744000645 active site 582744000646 Int/Topo IB signature motif; other site 582744000647 Protein of unknown function, DUF484; Region: DUF484; cl17449 582744000648 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 582744000649 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 582744000650 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 582744000651 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 582744000652 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 582744000653 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 582744000654 putative acyl-acceptor binding pocket; other site 582744000655 S-adenosylmethionine synthetase; Validated; Region: PRK05250 582744000656 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 582744000657 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 582744000658 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 582744000659 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 582744000660 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 582744000661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 582744000662 Zn2+ binding site [ion binding]; other site 582744000663 Mg2+ binding site [ion binding]; other site 582744000664 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 582744000665 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 582744000666 homotetramer interface [polypeptide binding]; other site 582744000667 ligand binding site [chemical binding]; other site 582744000668 catalytic site [active] 582744000669 NAD binding site [chemical binding]; other site 582744000670 Membrane protein of unknown function; Region: DUF360; cl00850 582744000671 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 582744000672 FAD binding site [chemical binding]; other site 582744000673 Protein of unknown function (DUF494); Region: DUF494; pfam04361 582744000674 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 582744000675 DNA protecting protein DprA; Region: dprA; TIGR00732 582744000676 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 582744000677 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 582744000678 active site 582744000679 catalytic residues [active] 582744000680 metal binding site [ion binding]; metal-binding site 582744000681 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 582744000682 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 582744000683 putative active site [active] 582744000684 substrate binding site [chemical binding]; other site 582744000685 putative cosubstrate binding site; other site 582744000686 catalytic site [active] 582744000687 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 582744000688 substrate binding site [chemical binding]; other site 582744000689 M48 family peptidase; Provisional; Region: PRK03001 582744000690 16S rRNA methyltransferase B; Provisional; Region: PRK10901 582744000691 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 582744000692 putative RNA binding site [nucleotide binding]; other site 582744000693 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 582744000694 S-adenosylmethionine binding site [chemical binding]; other site 582744000695 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 582744000696 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 582744000697 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 582744000698 dimerization interface [polypeptide binding]; other site 582744000699 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 582744000700 dimer interface [polypeptide binding]; other site 582744000701 phosphorylation site [posttranslational modification] 582744000702 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 582744000703 ATP binding site [chemical binding]; other site 582744000704 Mg2+ binding site [ion binding]; other site 582744000705 G-X-G motif; other site 582744000706 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 582744000707 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744000708 active site 582744000709 phosphorylation site [posttranslational modification] 582744000710 intermolecular recognition site; other site 582744000711 dimerization interface [polypeptide binding]; other site 582744000712 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; cl17189 582744000713 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 582744000714 TfoX N-terminal domain; Region: TfoX_N; pfam04993 582744000715 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 582744000716 putative catalytic site [active] 582744000717 putative phosphate binding site [ion binding]; other site 582744000718 active site 582744000719 metal binding site A [ion binding]; metal-binding site 582744000720 DNA binding site [nucleotide binding] 582744000721 putative AP binding site [nucleotide binding]; other site 582744000722 putative metal binding site B [ion binding]; other site 582744000723 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 582744000724 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 582744000725 catalytic residues [active] 582744000726 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 582744000727 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 582744000728 active site 582744000729 Zn binding site [ion binding]; other site 582744000730 Tic20-like protein; Region: Tic20; pfam09685 582744000731 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 582744000732 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 582744000733 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 582744000734 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 582744000735 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 582744000736 dimerization domain swap beta strand [polypeptide binding]; other site 582744000737 regulatory protein interface [polypeptide binding]; other site 582744000738 active site 582744000739 regulatory phosphorylation site [posttranslational modification]; other site 582744000740 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 582744000741 active pocket/dimerization site; other site 582744000742 active site 582744000743 phosphorylation site [posttranslational modification] 582744000744 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 582744000745 AAA domain; Region: AAA_18; pfam13238 582744000746 HPr kinase/phosphorylase; Provisional; Region: PRK05428 582744000747 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 582744000748 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 582744000749 Hpr binding site; other site 582744000750 active site 582744000751 homohexamer subunit interaction site [polypeptide binding]; other site 582744000752 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...; Region: RaiA; cd00552 582744000753 30S subunit binding site; other site 582744000754 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 582744000755 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 582744000756 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 582744000757 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 582744000758 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 582744000759 Walker A/P-loop; other site 582744000760 ATP binding site [chemical binding]; other site 582744000761 Q-loop/lid; other site 582744000762 ABC transporter signature motif; other site 582744000763 Walker B; other site 582744000764 D-loop; other site 582744000765 H-loop/switch region; other site 582744000766 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 582744000767 OstA-like protein; Region: OstA; pfam03968 582744000768 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 582744000769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 582744000770 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 582744000771 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 582744000772 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 582744000773 putative active site [active] 582744000774 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 582744000775 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 582744000776 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 582744000777 TrkA-N domain; Region: TrkA_N; pfam02254 582744000778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 582744000779 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 582744000780 periplasmic chaperone; Provisional; Region: PRK10780 582744000781 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 582744000782 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 582744000783 trimer interface [polypeptide binding]; other site 582744000784 dimer interface [polypeptide binding]; other site 582744000785 putative active site [active] 582744000786 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 582744000787 Peptidase family M48; Region: Peptidase_M48; pfam01435 582744000788 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 582744000789 TPR motif; other site 582744000790 binding surface 582744000791 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 582744000792 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 582744000793 peroxiredoxin; Region: AhpC; TIGR03137 582744000794 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 582744000795 dimer interface [polypeptide binding]; other site 582744000796 decamer (pentamer of dimers) interface [polypeptide binding]; other site 582744000797 catalytic triad [active] 582744000798 peroxidatic and resolving cysteines [active] 582744000799 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 582744000800 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 582744000801 catalytic residue [active] 582744000802 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 582744000803 catalytic residues [active] 582744000804 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 582744000805 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 582744000806 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 582744000807 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 582744000808 Walker A motif; other site 582744000809 ATP binding site [chemical binding]; other site 582744000810 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 582744000811 Domain of unknown function DUF20; Region: UPF0118; pfam01594 582744000812 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 582744000813 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 582744000814 dimerization interface [polypeptide binding]; other site 582744000815 putative ATP binding site [chemical binding]; other site 582744000816 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 582744000817 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 582744000818 16S rRNA methyltransferase B; Provisional; Region: PRK14902 582744000819 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 582744000820 S-adenosylmethionine binding site [chemical binding]; other site 582744000821 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 582744000822 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 582744000823 azurin; Region: azurin; TIGR02695 582744000824 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 582744000825 EamA-like transporter family; Region: EamA; pfam00892 582744000826 EamA-like transporter family; Region: EamA; pfam00892 582744000827 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 582744000828 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 582744000829 amidase catalytic site [active] 582744000830 Zn binding residues [ion binding]; other site 582744000831 substrate binding site [chemical binding]; other site 582744000832 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 582744000833 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 582744000834 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 582744000835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744000836 active site 582744000837 phosphorylation site [posttranslational modification] 582744000838 intermolecular recognition site; other site 582744000839 dimerization interface [polypeptide binding]; other site 582744000840 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 582744000841 Walker A motif; other site 582744000842 ATP binding site [chemical binding]; other site 582744000843 Walker B motif; other site 582744000844 arginine finger; other site 582744000845 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744000846 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 582744000847 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 582744000848 dimer interface [polypeptide binding]; other site 582744000849 phosphorylation site [posttranslational modification] 582744000850 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 582744000851 ATP binding site [chemical binding]; other site 582744000852 Mg2+ binding site [ion binding]; other site 582744000853 G-X-G motif; other site 582744000854 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744000855 RNA polymerase factor sigma-70; Validated; Region: PRK09047 582744000856 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 582744000857 DNA binding residues [nucleotide binding] 582744000858 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 582744000859 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 582744000860 RDD family; Region: RDD; pfam06271 582744000861 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 582744000862 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 582744000863 Predicted permeases [General function prediction only]; Region: COG0795 582744000864 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 582744000865 multifunctional aminopeptidase A; Provisional; Region: PRK00913 582744000866 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 582744000867 interface (dimer of trimers) [polypeptide binding]; other site 582744000868 Substrate-binding/catalytic site; other site 582744000869 Zn-binding sites [ion binding]; other site 582744000870 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 582744000871 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 582744000872 lipoyl attachment site [posttranslational modification]; other site 582744000873 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 582744000874 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 582744000875 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 582744000876 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 582744000877 active site 582744000878 interdomain interaction site; other site 582744000879 putative metal-binding site [ion binding]; other site 582744000880 nucleotide binding site [chemical binding]; other site 582744000881 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 582744000882 domain I; other site 582744000883 DNA binding groove [nucleotide binding] 582744000884 phosphate binding site [ion binding]; other site 582744000885 domain II; other site 582744000886 domain III; other site 582744000887 nucleotide binding site [chemical binding]; other site 582744000888 catalytic site [active] 582744000889 domain IV; other site 582744000890 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 582744000891 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 582744000892 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 582744000893 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 582744000894 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 582744000895 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 582744000896 Ligand Binding Site [chemical binding]; other site 582744000897 pteridine reductase; Provisional; Region: PRK09135 582744000898 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 582744000899 NADP binding site [chemical binding]; other site 582744000900 substrate binding pocket [chemical binding]; other site 582744000901 active site 582744000902 Uncharacterized conserved protein [Function unknown]; Region: COG1565 582744000903 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 582744000904 S-adenosylmethionine binding site [chemical binding]; other site 582744000905 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 582744000906 G1 box; other site 582744000907 GTP/Mg2+ binding site [chemical binding]; other site 582744000908 Switch I region; other site 582744000909 G2 box; other site 582744000910 G3 box; other site 582744000911 Switch II region; other site 582744000912 G4 box; other site 582744000913 G5 box; other site 582744000914 Cytochrome c553 [Energy production and conversion]; Region: COG2863 582744000915 Cytochrome c; Region: Cytochrom_C; cl11414 582744000916 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 582744000917 ResB-like family; Region: ResB; pfam05140 582744000918 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 582744000919 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744000920 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 582744000921 ATP binding site [chemical binding]; other site 582744000922 Mg2+ binding site [ion binding]; other site 582744000923 G-X-G motif; other site 582744000924 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 582744000925 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 582744000926 Walker A/P-loop; other site 582744000927 ATP binding site [chemical binding]; other site 582744000928 Q-loop/lid; other site 582744000929 ABC transporter signature motif; other site 582744000930 Walker B; other site 582744000931 D-loop; other site 582744000932 H-loop/switch region; other site 582744000933 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 582744000934 Permease; Region: Permease; pfam02405 582744000935 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 582744000936 mce related protein; Region: MCE; pfam02470 582744000937 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 582744000938 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 582744000939 anti sigma factor interaction site; other site 582744000940 regulatory phosphorylation site [posttranslational modification]; other site 582744000941 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 582744000942 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 582744000943 Walker A/P-loop; other site 582744000944 ATP binding site [chemical binding]; other site 582744000945 Q-loop/lid; other site 582744000946 ABC transporter signature motif; other site 582744000947 Walker B; other site 582744000948 D-loop; other site 582744000949 H-loop/switch region; other site 582744000950 ABC-2 type transporter; Region: ABC2_membrane; cl17235 582744000951 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 582744000952 BolA-like protein; Region: BolA; pfam01722 582744000953 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 582744000954 putative GSH binding site [chemical binding]; other site 582744000955 catalytic residues [active] 582744000956 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 582744000957 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 582744000958 hinge; other site 582744000959 active site 582744000960 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 582744000961 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 582744000962 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 582744000963 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 582744000964 NAD binding site [chemical binding]; other site 582744000965 dimerization interface [polypeptide binding]; other site 582744000966 product binding site; other site 582744000967 substrate binding site [chemical binding]; other site 582744000968 zinc binding site [ion binding]; other site 582744000969 catalytic residues [active] 582744000970 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 582744000971 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 582744000972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744000973 homodimer interface [polypeptide binding]; other site 582744000974 catalytic residue [active] 582744000975 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 582744000976 active site 582744000977 dimer interface [polypeptide binding]; other site 582744000978 magnesium binding site [ion binding]; other site 582744000979 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 582744000980 putative active site pocket [active] 582744000981 4-fold oligomerization interface [polypeptide binding]; other site 582744000982 metal binding residues [ion binding]; metal-binding site 582744000983 3-fold/trimer interface [polypeptide binding]; other site 582744000984 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 582744000985 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 582744000986 putative active site [active] 582744000987 oxyanion strand; other site 582744000988 catalytic triad [active] 582744000989 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 582744000990 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 582744000991 catalytic residues [active] 582744000992 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 582744000993 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 582744000994 substrate binding site [chemical binding]; other site 582744000995 glutamase interaction surface [polypeptide binding]; other site 582744000996 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 582744000997 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 582744000998 metal binding site [ion binding]; metal-binding site 582744000999 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 582744001000 nucleotide binding site/active site [active] 582744001001 HIT family signature motif; other site 582744001002 catalytic residue [active] 582744001003 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 582744001004 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 582744001005 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 582744001006 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 582744001007 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 582744001008 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 582744001009 protein binding site [polypeptide binding]; other site 582744001010 Uncharacterized conserved protein [Function unknown]; Region: COG0327 582744001011 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 582744001012 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 582744001013 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 582744001014 [2Fe-2S] cluster binding site [ion binding]; other site 582744001015 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 582744001016 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 582744001017 Qi binding site; other site 582744001018 intrachain domain interface; other site 582744001019 interchain domain interface [polypeptide binding]; other site 582744001020 heme bH binding site [chemical binding]; other site 582744001021 heme bL binding site [chemical binding]; other site 582744001022 Qo binding site; other site 582744001023 interchain domain interface [polypeptide binding]; other site 582744001024 intrachain domain interface; other site 582744001025 Qi binding site; other site 582744001026 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 582744001027 Qo binding site; other site 582744001028 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 582744001029 stringent starvation protein A; Provisional; Region: sspA; PRK09481 582744001030 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 582744001031 C-terminal domain interface [polypeptide binding]; other site 582744001032 putative GSH binding site (G-site) [chemical binding]; other site 582744001033 dimer interface [polypeptide binding]; other site 582744001034 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 582744001035 dimer interface [polypeptide binding]; other site 582744001036 N-terminal domain interface [polypeptide binding]; other site 582744001037 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 582744001038 elongation factor Tu; Reviewed; Region: PRK00049 582744001039 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 582744001040 G1 box; other site 582744001041 GEF interaction site [polypeptide binding]; other site 582744001042 GTP/Mg2+ binding site [chemical binding]; other site 582744001043 Switch I region; other site 582744001044 G2 box; other site 582744001045 G3 box; other site 582744001046 Switch II region; other site 582744001047 G4 box; other site 582744001048 G5 box; other site 582744001049 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 582744001050 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 582744001051 Antibiotic Binding Site [chemical binding]; other site 582744001052 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 582744001053 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 582744001054 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 582744001055 putative homodimer interface [polypeptide binding]; other site 582744001056 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 582744001057 heterodimer interface [polypeptide binding]; other site 582744001058 homodimer interface [polypeptide binding]; other site 582744001059 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 582744001060 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 582744001061 23S rRNA interface [nucleotide binding]; other site 582744001062 L7/L12 interface [polypeptide binding]; other site 582744001063 putative thiostrepton binding site; other site 582744001064 L25 interface [polypeptide binding]; other site 582744001065 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 582744001066 mRNA/rRNA interface [nucleotide binding]; other site 582744001067 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 582744001068 23S rRNA interface [nucleotide binding]; other site 582744001069 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 582744001070 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 582744001071 core dimer interface [polypeptide binding]; other site 582744001072 peripheral dimer interface [polypeptide binding]; other site 582744001073 L10 interface [polypeptide binding]; other site 582744001074 L11 interface [polypeptide binding]; other site 582744001075 putative EF-Tu interaction site [polypeptide binding]; other site 582744001076 putative EF-G interaction site [polypeptide binding]; other site 582744001077 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 582744001078 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; cl17585 582744001079 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 582744001080 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 582744001081 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 582744001082 RPB3 interaction site [polypeptide binding]; other site 582744001083 RPB1 interaction site [polypeptide binding]; other site 582744001084 RPB11 interaction site [polypeptide binding]; other site 582744001085 RPB10 interaction site [polypeptide binding]; other site 582744001086 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 582744001087 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 582744001088 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 582744001089 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 582744001090 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 582744001091 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 582744001092 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 582744001093 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 582744001094 DNA binding site [nucleotide binding] 582744001095 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 582744001096 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 582744001097 S17 interaction site [polypeptide binding]; other site 582744001098 S8 interaction site; other site 582744001099 16S rRNA interaction site [nucleotide binding]; other site 582744001100 streptomycin interaction site [chemical binding]; other site 582744001101 23S rRNA interaction site [nucleotide binding]; other site 582744001102 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 582744001103 30S ribosomal protein S7; Validated; Region: PRK05302 582744001104 elongation factor G; Reviewed; Region: PRK00007 582744001105 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 582744001106 G1 box; other site 582744001107 putative GEF interaction site [polypeptide binding]; other site 582744001108 GTP/Mg2+ binding site [chemical binding]; other site 582744001109 Switch I region; other site 582744001110 G2 box; other site 582744001111 G3 box; other site 582744001112 Switch II region; other site 582744001113 G4 box; other site 582744001114 G5 box; other site 582744001115 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 582744001116 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 582744001117 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 582744001118 elongation factor Tu; Reviewed; Region: PRK00049 582744001119 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 582744001120 G1 box; other site 582744001121 GEF interaction site [polypeptide binding]; other site 582744001122 GTP/Mg2+ binding site [chemical binding]; other site 582744001123 Switch I region; other site 582744001124 G2 box; other site 582744001125 G3 box; other site 582744001126 Switch II region; other site 582744001127 G4 box; other site 582744001128 G5 box; other site 582744001129 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 582744001130 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 582744001131 Antibiotic Binding Site [chemical binding]; other site 582744001132 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 582744001133 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 582744001134 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 582744001135 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 582744001136 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 582744001137 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 582744001138 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 582744001139 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 582744001140 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 582744001141 putative translocon binding site; other site 582744001142 protein-rRNA interface [nucleotide binding]; other site 582744001143 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 582744001144 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 582744001145 G-X-X-G motif; other site 582744001146 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 582744001147 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 582744001148 23S rRNA interface [nucleotide binding]; other site 582744001149 5S rRNA interface [nucleotide binding]; other site 582744001150 putative antibiotic binding site [chemical binding]; other site 582744001151 L25 interface [polypeptide binding]; other site 582744001152 L27 interface [polypeptide binding]; other site 582744001153 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 582744001154 23S rRNA interface [nucleotide binding]; other site 582744001155 putative translocon interaction site; other site 582744001156 signal recognition particle (SRP54) interaction site; other site 582744001157 L23 interface [polypeptide binding]; other site 582744001158 trigger factor interaction site; other site 582744001159 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 582744001160 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 582744001161 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 582744001162 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 582744001163 RNA binding site [nucleotide binding]; other site 582744001164 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 582744001165 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 582744001166 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 582744001167 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 582744001168 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 582744001169 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 582744001170 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 582744001171 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 582744001172 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 582744001173 5S rRNA interface [nucleotide binding]; other site 582744001174 23S rRNA interface [nucleotide binding]; other site 582744001175 L5 interface [polypeptide binding]; other site 582744001176 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 582744001177 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 582744001178 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 582744001179 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 582744001180 23S rRNA binding site [nucleotide binding]; other site 582744001181 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 582744001182 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 582744001183 SecY translocase; Region: SecY; pfam00344 582744001184 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 582744001185 rRNA binding site [nucleotide binding]; other site 582744001186 predicted 30S ribosome binding site; other site 582744001187 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 582744001188 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 582744001189 30S ribosomal protein S13; Region: bact_S13; TIGR03631 582744001190 30S ribosomal protein S11; Validated; Region: PRK05309 582744001191 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 582744001192 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 582744001193 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 582744001194 RNA binding surface [nucleotide binding]; other site 582744001195 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 582744001196 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 582744001197 alphaNTD homodimer interface [polypeptide binding]; other site 582744001198 alphaNTD - beta interaction site [polypeptide binding]; other site 582744001199 alphaNTD - beta' interaction site [polypeptide binding]; other site 582744001200 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 582744001201 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 582744001202 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 582744001203 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 582744001204 MgtE intracellular N domain; Region: MgtE_N; smart00924 582744001205 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 582744001206 Divalent cation transporter; Region: MgtE; pfam01769 582744001207 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 582744001208 Mechanosensitive ion channel; Region: MS_channel; pfam00924 582744001209 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 582744001210 Fatty acid desaturase; Region: FA_desaturase; pfam00487 582744001211 Di-iron ligands [ion binding]; other site 582744001212 Transposase; Region: DDE_Tnp_ISL3; pfam01610 582744001213 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 582744001214 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 582744001215 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 582744001216 trimer interface [polypeptide binding]; other site 582744001217 active site 582744001218 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 582744001219 Flavoprotein; Region: Flavoprotein; pfam02441 582744001220 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 582744001221 Peroxin-3; Region: Peroxin-3; pfam04882 582744001222 hypothetical protein; Reviewed; Region: PRK00024 582744001223 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 582744001224 MPN+ (JAMM) motif; other site 582744001225 Zinc-binding site [ion binding]; other site 582744001226 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 582744001227 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 582744001228 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 582744001229 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 582744001230 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 582744001231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 582744001232 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 582744001233 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 582744001234 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 582744001235 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 582744001236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 582744001237 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 582744001238 [4Fe-4S] binding site [ion binding]; other site 582744001239 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 582744001240 molybdopterin cofactor binding site; other site 582744001241 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 582744001242 molybdopterin cofactor binding site; other site 582744001243 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 582744001244 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 582744001245 [2Fe-2S] cluster binding site [ion binding]; other site 582744001246 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 582744001247 active site 582744001248 Catalytic domain of Protein Kinases; Region: PKc; cd00180 582744001249 active site 582744001250 ATP binding site [chemical binding]; other site 582744001251 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 582744001252 substrate binding site [chemical binding]; other site 582744001253 activation loop (A-loop); other site 582744001254 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 582744001255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744001256 putative substrate translocation pore; other site 582744001257 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 582744001258 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 582744001259 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 582744001260 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 582744001261 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 582744001262 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 582744001263 active site 582744001264 SAM binding site [chemical binding]; other site 582744001265 homodimer interface [polypeptide binding]; other site 582744001266 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 582744001267 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744001268 putative CheW interface [polypeptide binding]; other site 582744001269 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 582744001270 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 582744001271 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 582744001272 Walker A/P-loop; other site 582744001273 ATP binding site [chemical binding]; other site 582744001274 Q-loop/lid; other site 582744001275 ABC transporter signature motif; other site 582744001276 Walker B; other site 582744001277 D-loop; other site 582744001278 H-loop/switch region; other site 582744001279 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 582744001280 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 582744001281 dimer interface [polypeptide binding]; other site 582744001282 conserved gate region; other site 582744001283 putative PBP binding loops; other site 582744001284 ABC-ATPase subunit interface; other site 582744001285 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 582744001286 NMT1-like family; Region: NMT1_2; pfam13379 582744001287 Nitrate and nitrite sensing; Region: NIT; pfam08376 582744001288 ANTAR domain; Region: ANTAR; pfam03861 582744001289 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 582744001290 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 582744001291 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 582744001292 Walker A/P-loop; other site 582744001293 ATP binding site [chemical binding]; other site 582744001294 Q-loop/lid; other site 582744001295 ABC transporter signature motif; other site 582744001296 Walker B; other site 582744001297 D-loop; other site 582744001298 H-loop/switch region; other site 582744001299 similar to hypothetical protein 582744001300 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 582744001301 lipoprotein; Provisional; Region: PRK10540 582744001302 carbon starvation protein A; Provisional; Region: PRK15015 582744001303 Carbon starvation protein CstA; Region: CstA; pfam02554 582744001304 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 582744001305 Protein of unknown function (DUF466); Region: DUF466; cl01082 582744001306 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 582744001307 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 582744001308 PAS domain; Region: PAS_9; pfam13426 582744001309 PAS fold; Region: PAS_4; pfam08448 582744001310 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 582744001311 putative active site [active] 582744001312 heme pocket [chemical binding]; other site 582744001313 PAS fold; Region: PAS_4; pfam08448 582744001314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744001315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744001316 metal binding site [ion binding]; metal-binding site 582744001317 active site 582744001318 I-site; other site 582744001319 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 582744001320 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 582744001321 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 582744001322 active site 582744001323 phosphate binding residues; other site 582744001324 catalytic residues [active] 582744001325 Cytochrome c; Region: Cytochrom_C; cl11414 582744001326 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 582744001327 homotrimer interaction site [polypeptide binding]; other site 582744001328 putative active site [active] 582744001329 amino acid transporter; Region: 2A0306; TIGR00909 582744001330 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 582744001331 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 582744001332 amino acid carrier protein; Region: agcS; TIGR00835 582744001333 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 582744001334 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 582744001335 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 582744001336 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 582744001337 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 582744001338 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 582744001339 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 582744001340 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 582744001341 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 582744001342 purine monophosphate binding site [chemical binding]; other site 582744001343 dimer interface [polypeptide binding]; other site 582744001344 putative catalytic residues [active] 582744001345 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 582744001346 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 582744001347 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 582744001348 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 582744001349 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 582744001350 FMN binding site [chemical binding]; other site 582744001351 active site 582744001352 catalytic residues [active] 582744001353 substrate binding site [chemical binding]; other site 582744001354 metabolite-proton symporter; Region: 2A0106; TIGR00883 582744001355 Flagellin N-methylase; Region: FliB; cl00497 582744001356 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 582744001357 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 582744001358 putative MPT binding site; other site 582744001359 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 582744001360 DNA polymerase I; Provisional; Region: PRK05755 582744001361 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 582744001362 active site 582744001363 metal binding site 1 [ion binding]; metal-binding site 582744001364 putative 5' ssDNA interaction site; other site 582744001365 metal binding site 3; metal-binding site 582744001366 metal binding site 2 [ion binding]; metal-binding site 582744001367 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 582744001368 putative DNA binding site [nucleotide binding]; other site 582744001369 putative metal binding site [ion binding]; other site 582744001370 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 582744001371 active site 582744001372 catalytic site [active] 582744001373 substrate binding site [chemical binding]; other site 582744001374 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 582744001375 active site 582744001376 DNA binding site [nucleotide binding] 582744001377 catalytic site [active] 582744001378 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 582744001379 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 582744001380 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 582744001381 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 582744001382 putative active site [active] 582744001383 putative substrate binding site [chemical binding]; other site 582744001384 ATP binding site [chemical binding]; other site 582744001385 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 582744001386 Part of AAA domain; Region: AAA_19; pfam13245 582744001387 Family description; Region: UvrD_C_2; pfam13538 582744001388 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 582744001389 ligand binding site [chemical binding]; other site 582744001390 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 582744001391 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 582744001392 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744001393 metal binding site [ion binding]; metal-binding site 582744001394 active site 582744001395 I-site; other site 582744001396 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 582744001397 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 582744001398 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 582744001399 dimerization interface [polypeptide binding]; other site 582744001400 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 582744001401 dimer interface [polypeptide binding]; other site 582744001402 phosphorylation site [posttranslational modification] 582744001403 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 582744001404 ATP binding site [chemical binding]; other site 582744001405 Mg2+ binding site [ion binding]; other site 582744001406 G-X-G motif; other site 582744001407 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 582744001408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744001409 active site 582744001410 phosphorylation site [posttranslational modification] 582744001411 intermolecular recognition site; other site 582744001412 dimerization interface [polypeptide binding]; other site 582744001413 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 582744001414 DNA binding site [nucleotide binding] 582744001415 Outer membrane efflux protein; Region: OEP; pfam02321 582744001416 Outer membrane efflux protein; Region: OEP; pfam02321 582744001417 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 582744001418 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 582744001419 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 582744001420 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 582744001421 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 582744001422 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 582744001423 ring oligomerisation interface [polypeptide binding]; other site 582744001424 ATP/Mg binding site [chemical binding]; other site 582744001425 stacking interactions; other site 582744001426 hinge regions; other site 582744001427 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 582744001428 oligomerisation interface [polypeptide binding]; other site 582744001429 mobile loop; other site 582744001430 roof hairpin; other site 582744001431 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 582744001432 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 582744001433 putative deacylase active site [active] 582744001434 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 582744001435 DEAD_2; Region: DEAD_2; pfam06733 582744001436 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 582744001437 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 582744001438 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 582744001439 active site 582744001440 DNA binding site [nucleotide binding] 582744001441 Int/Topo IB signature motif; other site 582744001442 catalytic residues [active] 582744001443 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 582744001444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 582744001445 DNA-binding site [nucleotide binding]; DNA binding site 582744001446 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 582744001447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744001448 homodimer interface [polypeptide binding]; other site 582744001449 catalytic residue [active] 582744001450 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 582744001451 4Fe-4S binding domain; Region: Fer4; pfam00037 582744001452 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 582744001453 Response regulator receiver domain; Region: Response_reg; pfam00072 582744001454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744001455 active site 582744001456 phosphorylation site [posttranslational modification] 582744001457 intermolecular recognition site; other site 582744001458 dimerization interface [polypeptide binding]; other site 582744001459 PAS domain S-box; Region: sensory_box; TIGR00229 582744001460 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 582744001461 putative active site [active] 582744001462 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744001463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744001464 metal binding site [ion binding]; metal-binding site 582744001465 active site 582744001466 I-site; other site 582744001467 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 582744001468 HDOD domain; Region: HDOD; pfam08668 582744001469 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 582744001470 Zn2+ binding site [ion binding]; other site 582744001471 Mg2+ binding site [ion binding]; other site 582744001472 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 582744001473 dimer interface [polypeptide binding]; other site 582744001474 phosphorylation site [posttranslational modification] 582744001475 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 582744001476 ATP binding site [chemical binding]; other site 582744001477 Mg2+ binding site [ion binding]; other site 582744001478 G-X-G motif; other site 582744001479 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744001480 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 582744001481 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 582744001482 N-terminal plug; other site 582744001483 ligand-binding site [chemical binding]; other site 582744001484 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 582744001485 FecR protein; Region: FecR; pfam04773 582744001486 RNA polymerase sigma factor; Reviewed; Region: PRK12523 582744001487 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744001488 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 582744001489 DNA binding residues [nucleotide binding] 582744001490 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 582744001491 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 582744001492 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 582744001493 RNA polymerase sigma factor; Provisional; Region: PRK12528 582744001494 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744001495 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 582744001496 DNA binding residues [nucleotide binding] 582744001497 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 582744001498 FecR protein; Region: FecR; pfam04773 582744001499 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744001500 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 582744001501 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 582744001502 N-terminal plug; other site 582744001503 ligand-binding site [chemical binding]; other site 582744001504 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 582744001505 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 582744001506 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 582744001507 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 582744001508 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 582744001509 macrolide transporter subunit MacA; Provisional; Region: PRK11578 582744001510 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744001511 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744001512 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 582744001513 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 582744001514 Walker A/P-loop; other site 582744001515 ATP binding site [chemical binding]; other site 582744001516 Q-loop/lid; other site 582744001517 ABC transporter signature motif; other site 582744001518 Walker B; other site 582744001519 D-loop; other site 582744001520 H-loop/switch region; other site 582744001521 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 582744001522 FtsX-like permease family; Region: FtsX; pfam02687 582744001523 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 582744001524 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 582744001525 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 582744001526 inhibitor-cofactor binding pocket; inhibition site 582744001527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744001528 catalytic residue [active] 582744001529 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 582744001530 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 582744001531 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 582744001532 OsmC-like protein; Region: OsmC; cl00767 582744001533 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 582744001534 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 582744001535 active site 582744001536 metal binding site [ion binding]; metal-binding site 582744001537 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 582744001538 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 582744001539 N-terminal plug; other site 582744001540 ligand-binding site [chemical binding]; other site 582744001541 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 582744001542 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 582744001543 diiron binding motif [ion binding]; other site 582744001544 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 582744001545 C-terminal peptidase (prc); Region: prc; TIGR00225 582744001546 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 582744001547 protein binding site [polypeptide binding]; other site 582744001548 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 582744001549 Catalytic dyad [active] 582744001550 Rdx family; Region: Rdx; cl01407 582744001551 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 582744001552 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 582744001553 NlpC/P60 family; Region: NLPC_P60; pfam00877 582744001554 ABC1 family; Region: ABC1; cl17513 582744001555 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 582744001556 Uncharacterized conserved protein [Function unknown]; Region: COG2308 582744001557 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 582744001558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 582744001559 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 582744001560 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 582744001561 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 582744001562 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 582744001563 Peptidase family U32; Region: Peptidase_U32; pfam01136 582744001564 Collagenase; Region: DUF3656; pfam12392 582744001565 cell division protein MraZ; Reviewed; Region: PRK00326 582744001566 MraZ protein; Region: MraZ; pfam02381 582744001567 MraZ protein; Region: MraZ; pfam02381 582744001568 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 582744001569 MraW methylase family; Region: Methyltransf_5; cl17771 582744001570 Cell division protein FtsL; Region: FtsL; pfam04999 582744001571 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 582744001572 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 582744001573 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 582744001574 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 582744001575 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 582744001576 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 582744001577 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 582744001578 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 582744001579 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 582744001580 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 582744001581 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 582744001582 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 582744001583 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 582744001584 Mg++ binding site [ion binding]; other site 582744001585 putative catalytic motif [active] 582744001586 putative substrate binding site [chemical binding]; other site 582744001587 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 582744001588 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 582744001589 cell division protein FtsW; Region: ftsW; TIGR02614 582744001590 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 582744001591 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 582744001592 active site 582744001593 homodimer interface [polypeptide binding]; other site 582744001594 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 582744001595 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 582744001596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 582744001597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 582744001598 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 582744001599 FAD binding domain; Region: FAD_binding_4; pfam01565 582744001600 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 582744001601 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 582744001602 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 582744001603 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 582744001604 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 582744001605 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 582744001606 Cell division protein FtsQ; Region: FtsQ; pfam03799 582744001607 cell division protein FtsA; Region: ftsA; TIGR01174 582744001608 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 582744001609 nucleotide binding site [chemical binding]; other site 582744001610 Cell division protein FtsA; Region: FtsA; pfam14450 582744001611 cell division protein FtsZ; Validated; Region: PRK09330 582744001612 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 582744001613 nucleotide binding site [chemical binding]; other site 582744001614 SulA interaction site; other site 582744001615 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 582744001616 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 582744001617 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 582744001618 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...; Region: LT_GEWL; cd00254 582744001619 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744001620 catalytic residue [active] 582744001621 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 582744001622 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 582744001623 putative NAD(P) binding site [chemical binding]; other site 582744001624 active site 582744001625 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 582744001626 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 582744001627 active site 582744001628 NTP binding site [chemical binding]; other site 582744001629 metal binding triad [ion binding]; metal-binding site 582744001630 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 582744001631 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 582744001632 division inhibitor protein; Provisional; Region: slmA; PRK09480 582744001633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744001634 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 582744001635 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 582744001636 motif II; other site 582744001637 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 582744001638 feedback inhibition sensing region; other site 582744001639 homohexameric interface [polypeptide binding]; other site 582744001640 nucleotide binding site [chemical binding]; other site 582744001641 N-acetyl-L-glutamate binding site [chemical binding]; other site 582744001642 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 582744001643 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 582744001644 Potassium binding sites [ion binding]; other site 582744001645 Cesium cation binding sites [ion binding]; other site 582744001646 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 582744001647 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 582744001648 putative dimer interface [polypeptide binding]; other site 582744001649 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 582744001650 non-specific DNA binding site [nucleotide binding]; other site 582744001651 salt bridge; other site 582744001652 sequence-specific DNA binding site [nucleotide binding]; other site 582744001653 N-acetylglutamate synthase; Validated; Region: PRK05279 582744001654 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 582744001655 putative feedback inhibition sensing region; other site 582744001656 putative nucleotide binding site [chemical binding]; other site 582744001657 putative substrate binding site [chemical binding]; other site 582744001658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744001659 Coenzyme A binding pocket [chemical binding]; other site 582744001660 manganese transport protein MntH; Reviewed; Region: PRK00701 582744001661 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 582744001662 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 582744001663 RNA methyltransferase, RsmE family; Region: TIGR00046 582744001664 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 582744001665 putative catalytic residue [active] 582744001666 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744001667 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744001668 metal binding site [ion binding]; metal-binding site 582744001669 active site 582744001670 I-site; other site 582744001671 transketolase; Reviewed; Region: PRK12753 582744001672 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 582744001673 TPP-binding site [chemical binding]; other site 582744001674 dimer interface [polypeptide binding]; other site 582744001675 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 582744001676 PYR/PP interface [polypeptide binding]; other site 582744001677 dimer interface [polypeptide binding]; other site 582744001678 TPP binding site [chemical binding]; other site 582744001679 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 582744001680 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 582744001681 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 582744001682 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 582744001683 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 582744001684 Phosphoglycerate kinase; Region: PGK; pfam00162 582744001685 substrate binding site [chemical binding]; other site 582744001686 hinge regions; other site 582744001687 ADP binding site [chemical binding]; other site 582744001688 catalytic site [active] 582744001689 pyruvate kinase; Provisional; Region: PRK05826 582744001690 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; cl17342 582744001691 domain interfaces; other site 582744001692 active site 582744001693 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 582744001694 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 582744001695 intersubunit interface [polypeptide binding]; other site 582744001696 active site 582744001697 zinc binding site [ion binding]; other site 582744001698 Na+ binding site [ion binding]; other site 582744001699 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 582744001700 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 582744001701 ATP binding site [chemical binding]; other site 582744001702 active site 582744001703 substrate binding site [chemical binding]; other site 582744001704 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 582744001705 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 582744001706 active site clefts [active] 582744001707 zinc binding site [ion binding]; other site 582744001708 dimer interface [polypeptide binding]; other site 582744001709 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 582744001710 dimer interface [polypeptide binding]; other site 582744001711 substrate binding site [chemical binding]; other site 582744001712 metal binding sites [ion binding]; metal-binding site 582744001713 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 582744001714 ligand binding site [chemical binding]; other site 582744001715 active site 582744001716 UGI interface [polypeptide binding]; other site 582744001717 catalytic site [active] 582744001718 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 582744001719 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 582744001720 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 582744001721 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 582744001722 Walker A/P-loop; other site 582744001723 ATP binding site [chemical binding]; other site 582744001724 Q-loop/lid; other site 582744001725 ABC transporter signature motif; other site 582744001726 Walker B; other site 582744001727 D-loop; other site 582744001728 H-loop/switch region; other site 582744001729 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 582744001730 Protein of unknown function (DUF721); Region: DUF721; pfam05258 582744001731 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 582744001732 Peptidase family M23; Region: Peptidase_M23; pfam01551 582744001733 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 582744001734 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 582744001735 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; cl17351 582744001736 nucleotide binding region [chemical binding]; other site 582744001737 SEC-C motif; Region: SEC-C; pfam02810 582744001738 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 582744001739 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 582744001740 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 582744001741 heterotetramer interface [polypeptide binding]; other site 582744001742 active site pocket [active] 582744001743 cleavage site 582744001744 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 582744001745 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 582744001746 Walker A motif; other site 582744001747 ATP binding site [chemical binding]; other site 582744001748 Walker B motif; other site 582744001749 hypothetical protein; Provisional; Region: PRK08999 582744001750 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 582744001751 active site 582744001752 8-oxo-dGMP binding site [chemical binding]; other site 582744001753 nudix motif; other site 582744001754 metal binding site [ion binding]; metal-binding site 582744001755 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 582744001756 thiamine phosphate binding site [chemical binding]; other site 582744001757 active site 582744001758 pyrophosphate binding site [ion binding]; other site 582744001759 Protein of unknown function (DUF461); Region: DUF461; pfam04314 582744001760 hypothetical protein; Provisional; Region: PRK05287 582744001761 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 582744001762 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 582744001763 CoA-binding site [chemical binding]; other site 582744001764 ATP-binding [chemical binding]; other site 582744001765 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 582744001766 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 582744001767 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 582744001768 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 582744001769 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 582744001770 substrate binding pocket [chemical binding]; other site 582744001771 chain length determination region; other site 582744001772 substrate-Mg2+ binding site; other site 582744001773 catalytic residues [active] 582744001774 aspartate-rich region 1; other site 582744001775 active site lid residues [active] 582744001776 aspartate-rich region 2; other site 582744001777 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 582744001778 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 582744001779 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 582744001780 GTPase CgtA; Reviewed; Region: obgE; PRK12299 582744001781 GTP1/OBG; Region: GTP1_OBG; pfam01018 582744001782 Obg GTPase; Region: Obg; cd01898 582744001783 G1 box; other site 582744001784 GTP/Mg2+ binding site [chemical binding]; other site 582744001785 Switch I region; other site 582744001786 G2 box; other site 582744001787 G3 box; other site 582744001788 Switch II region; other site 582744001789 G4 box; other site 582744001790 G5 box; other site 582744001791 gamma-glutamyl kinase; Provisional; Region: PRK05429 582744001792 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 582744001793 nucleotide binding site [chemical binding]; other site 582744001794 homotetrameric interface [polypeptide binding]; other site 582744001795 putative phosphate binding site [ion binding]; other site 582744001796 putative allosteric binding site; other site 582744001797 PUA domain; Region: PUA; pfam01472 582744001798 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 582744001799 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 582744001800 ATP-grasp domain; Region: ATP-grasp; pfam02222 582744001801 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 582744001802 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 582744001803 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 582744001804 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 582744001805 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 582744001806 active site 582744001807 Riboflavin kinase; Region: Flavokinase; smart00904 582744001808 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 582744001809 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 582744001810 active site 582744001811 HIGH motif; other site 582744001812 nucleotide binding site [chemical binding]; other site 582744001813 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 582744001814 active site 582744001815 KMSKS motif; other site 582744001816 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 582744001817 tRNA binding surface [nucleotide binding]; other site 582744001818 anticodon binding site; other site 582744001819 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 582744001820 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 582744001821 lipoprotein signal peptidase; Provisional; Region: PRK14787 582744001822 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 582744001823 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 582744001824 Moco binding site; other site 582744001825 metal coordination site [ion binding]; other site 582744001826 methionine sulfoxide reductase B; Provisional; Region: PRK00222 582744001827 SelR domain; Region: SelR; pfam01641 582744001828 Protein of unknown function (DUF808); Region: DUF808; pfam05661 582744001829 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 582744001830 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 582744001831 putative NAD(P) binding site [chemical binding]; other site 582744001832 putative substrate binding site [chemical binding]; other site 582744001833 catalytic Zn binding site [ion binding]; other site 582744001834 structural Zn binding site [ion binding]; other site 582744001835 dimer interface [polypeptide binding]; other site 582744001836 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 582744001837 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 582744001838 tetramer interface [polypeptide binding]; other site 582744001839 heme binding pocket [chemical binding]; other site 582744001840 NADPH binding site [chemical binding]; other site 582744001841 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 582744001842 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 582744001843 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 582744001844 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 582744001845 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 582744001846 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 582744001847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744001848 active site 582744001849 phosphorylation site [posttranslational modification] 582744001850 intermolecular recognition site; other site 582744001851 dimerization interface [polypeptide binding]; other site 582744001852 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744001853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744001854 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 582744001855 phosphorylation site [posttranslational modification] 582744001856 dimer interface [polypeptide binding]; other site 582744001857 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 582744001858 ATP binding site [chemical binding]; other site 582744001859 Mg2+ binding site [ion binding]; other site 582744001860 G-X-G motif; other site 582744001861 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 582744001862 N-terminal plug; other site 582744001863 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 582744001864 ligand-binding site [chemical binding]; other site 582744001865 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 582744001866 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 582744001867 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 582744001868 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 582744001869 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 582744001870 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 582744001871 Zn2+ binding site [ion binding]; other site 582744001872 Mg2+ binding site [ion binding]; other site 582744001873 PAS fold; Region: PAS_4; pfam08448 582744001874 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 582744001875 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 582744001876 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 582744001877 PAS domain; Region: PAS_9; pfam13426 582744001878 putative active site [active] 582744001879 heme pocket [chemical binding]; other site 582744001880 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744001881 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744001882 metal binding site [ion binding]; metal-binding site 582744001883 active site 582744001884 I-site; other site 582744001885 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 582744001886 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 582744001887 Clp amino terminal domain; Region: Clp_N; pfam02861 582744001888 Clp amino terminal domain; Region: Clp_N; pfam02861 582744001889 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 582744001890 Walker A motif; other site 582744001891 ATP binding site [chemical binding]; other site 582744001892 Walker B motif; other site 582744001893 arginine finger; other site 582744001894 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 582744001895 Walker A motif; other site 582744001896 ATP binding site [chemical binding]; other site 582744001897 Walker B motif; other site 582744001898 arginine finger; other site 582744001899 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 582744001900 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 582744001901 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 582744001902 NADP binding site [chemical binding]; other site 582744001903 Predicted transcriptional regulators [Transcription]; Region: COG1733 582744001904 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 582744001905 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 582744001906 Sel1-like repeats; Region: SEL1; smart00671 582744001907 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 582744001908 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...; Region: LT_GEWL; cd00254 582744001909 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744001910 catalytic residue [active] 582744001911 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 582744001912 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 582744001913 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 582744001914 putative active site [active] 582744001915 metal binding site [ion binding]; metal-binding site 582744001916 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 582744001917 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 582744001918 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 582744001919 Peptidase family M23; Region: Peptidase_M23; pfam01551 582744001920 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 582744001921 phosphoglyceromutase; Provisional; Region: PRK05434 582744001922 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 582744001923 active site residue [active] 582744001924 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 582744001925 GSH binding site [chemical binding]; other site 582744001926 catalytic residues [active] 582744001927 preprotein translocase subunit SecB; Validated; Region: PRK05751 582744001928 SecA binding site; other site 582744001929 Preprotein binding site; other site 582744001930 Src Homology 3 domain superfamily; Region: SH3; cl17036 582744001931 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 582744001932 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 582744001933 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 582744001934 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 582744001935 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_cladeC; cd03378 582744001936 active site clefts [active] 582744001937 zinc binding site [ion binding]; other site 582744001938 dimer interface [polypeptide binding]; other site 582744001939 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 582744001940 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 582744001941 Sulfate transporter family; Region: Sulfate_transp; pfam00916 582744001942 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 582744001943 anti sigma factor interaction site; other site 582744001944 regulatory phosphorylation site [posttranslational modification]; other site 582744001945 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 582744001946 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 582744001947 active site 582744001948 biotin synthase; Region: bioB; TIGR00433 582744001949 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 582744001950 FeS/SAM binding site; other site 582744001951 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 582744001952 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 582744001953 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 582744001954 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744001955 catalytic residue [active] 582744001956 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 582744001957 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 582744001958 TAP-like protein; Region: Abhydrolase_4; pfam08386 582744001959 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 582744001960 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 582744001961 S-adenosylmethionine binding site [chemical binding]; other site 582744001962 AAA domain; Region: AAA_26; pfam13500 582744001963 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 582744001964 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 582744001965 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 582744001966 active site 582744001967 (T/H)XGH motif; other site 582744001968 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 582744001969 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 582744001970 putative catalytic cysteine [active] 582744001971 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 582744001972 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 582744001973 Lipopolysaccharide-assembly; Region: LptE; cl01125 582744001974 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 582744001975 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 582744001976 HIGH motif; other site 582744001977 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 582744001978 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 582744001979 active site 582744001980 KMSKS motif; other site 582744001981 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 582744001982 tRNA binding surface [nucleotide binding]; other site 582744001983 adenylate kinase; Reviewed; Region: adk; PRK00279 582744001984 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 582744001985 AMP-binding site [chemical binding]; other site 582744001986 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 582744001987 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 582744001988 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 582744001989 S-adenosylmethionine binding site [chemical binding]; other site 582744001990 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 582744001991 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 582744001992 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 582744001993 SurA N-terminal domain; Region: SurA_N; pfam09312 582744001994 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 582744001995 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 582744001996 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 582744001997 OstA-like protein; Region: OstA; cl00844 582744001998 Organic solvent tolerance protein; Region: OstA_C; pfam04453 582744001999 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 582744002000 Phosphotransferase enzyme family; Region: APH; pfam01636 582744002001 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 582744002002 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 582744002003 Substrate binding site; other site 582744002004 metal-binding site 582744002005 proline aminopeptidase P II; Provisional; Region: PRK10879 582744002006 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 582744002007 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 582744002008 active site 582744002009 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 582744002010 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 582744002011 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 582744002012 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 582744002013 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 582744002014 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 582744002015 dimerization domain [polypeptide binding]; other site 582744002016 dimer interface [polypeptide binding]; other site 582744002017 catalytic residues [active] 582744002018 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 582744002019 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744002020 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744002021 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 582744002022 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 582744002023 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 582744002024 Walker A motif; other site 582744002025 ATP binding site [chemical binding]; other site 582744002026 Walker B motif; other site 582744002027 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 582744002028 DNA-binding site [nucleotide binding]; DNA binding site 582744002029 RNA-binding motif; other site 582744002030 isocitrate dehydrogenase; Validated; Region: PRK07362 582744002031 isocitrate dehydrogenase; Reviewed; Region: PRK07006 582744002032 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 582744002033 pseudouridine synthase; Region: TIGR00093 582744002034 active site 582744002035 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 582744002036 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 582744002037 catalytic triad [active] 582744002038 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 582744002039 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 582744002040 Tetramer interface [polypeptide binding]; other site 582744002041 active site 582744002042 FMN-binding site [chemical binding]; other site 582744002043 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 582744002044 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744002045 putative substrate translocation pore; other site 582744002046 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 582744002047 catalytic motif [active] 582744002048 Catalytic residue [active] 582744002049 putative GTP cyclohydrolase; Provisional; Region: PRK13674 582744002050 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 582744002051 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 582744002052 TPP-binding site; other site 582744002053 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 582744002054 PYR/PP interface [polypeptide binding]; other site 582744002055 dimer interface [polypeptide binding]; other site 582744002056 TPP binding site [chemical binding]; other site 582744002057 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 582744002058 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 582744002059 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 582744002060 substrate binding pocket [chemical binding]; other site 582744002061 chain length determination region; other site 582744002062 substrate-Mg2+ binding site; other site 582744002063 catalytic residues [active] 582744002064 aspartate-rich region 1; other site 582744002065 active site lid residues [active] 582744002066 aspartate-rich region 2; other site 582744002067 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 582744002068 putative hydrolase; Provisional; Region: PRK11460 582744002069 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 582744002070 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 582744002071 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 582744002072 Pilin (bacterial filament); Region: Pilin; pfam00114 582744002073 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 582744002074 putative hydrophobic ligand binding site [chemical binding]; other site 582744002075 protein interface [polypeptide binding]; other site 582744002076 gate; other site 582744002077 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 582744002078 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 582744002079 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 582744002080 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 582744002081 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 582744002082 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 582744002083 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 582744002084 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 582744002085 putative active site [active] 582744002086 Ap4A binding site [chemical binding]; other site 582744002087 nudix motif; other site 582744002088 putative metal binding site [ion binding]; other site 582744002089 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 582744002090 ketol-acid reductoisomerase; Provisional; Region: PRK05479 582744002091 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 582744002092 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 582744002093 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 582744002094 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 582744002095 putative valine binding site [chemical binding]; other site 582744002096 dimer interface [polypeptide binding]; other site 582744002097 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 582744002098 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 582744002099 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 582744002100 PYR/PP interface [polypeptide binding]; other site 582744002101 dimer interface [polypeptide binding]; other site 582744002102 TPP binding site [chemical binding]; other site 582744002103 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 582744002104 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 582744002105 TPP-binding site [chemical binding]; other site 582744002106 dimer interface [polypeptide binding]; other site 582744002107 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 582744002108 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 582744002109 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 582744002110 Walker A motif; other site 582744002111 ATP binding site [chemical binding]; other site 582744002112 Walker B motif; other site 582744002113 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 582744002114 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 582744002115 dimerization interface [polypeptide binding]; other site 582744002116 active site 582744002117 putative glutathione S-transferase; Provisional; Region: PRK10357 582744002118 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 582744002119 putative C-terminal domain interface [polypeptide binding]; other site 582744002120 putative GSH binding site (G-site) [chemical binding]; other site 582744002121 putative dimer interface [polypeptide binding]; other site 582744002122 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 582744002123 dimer interface [polypeptide binding]; other site 582744002124 N-terminal domain interface [polypeptide binding]; other site 582744002125 putative substrate binding pocket (H-site) [chemical binding]; other site 582744002126 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 582744002127 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 582744002128 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 582744002129 nudix motif; other site 582744002130 MarC family integral membrane protein; Region: MarC; cl00919 582744002131 DJ-1 family protein; Region: not_thiJ; TIGR01383 582744002132 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 582744002133 conserved cys residue [active] 582744002134 Maf-like protein; Region: Maf; pfam02545 582744002135 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 582744002136 active site 582744002137 dimer interface [polypeptide binding]; other site 582744002138 ribonuclease G; Provisional; Region: PRK11712 582744002139 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 582744002140 homodimer interface [polypeptide binding]; other site 582744002141 oligonucleotide binding site [chemical binding]; other site 582744002142 YGGT family; Region: YGGT; pfam02325 582744002143 YGGT family; Region: YGGT; pfam02325 582744002144 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 582744002145 pyrroline-5-carboxylate reductase; Region: PLN02688 582744002146 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 582744002147 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 582744002148 catalytic residue [active] 582744002149 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 582744002150 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 582744002151 Walker A motif; other site 582744002152 ATP binding site [chemical binding]; other site 582744002153 Walker B motif; other site 582744002154 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 582744002155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744002156 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744002157 Walker A motif; other site 582744002158 Walker A/P-loop; other site 582744002159 ATP binding site [chemical binding]; other site 582744002160 ATP binding site [chemical binding]; other site 582744002161 Walker B motif; other site 582744002162 Protein of unknown function DUF72; Region: DUF72; pfam01904 582744002163 dihydroorotase; Provisional; Region: PRK07627 582744002164 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 582744002165 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 582744002166 active site 582744002167 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 582744002168 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 582744002169 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 582744002170 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 582744002171 active site 582744002172 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 582744002173 hypothetical protein; Validated; Region: PRK00228 582744002174 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 582744002175 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 582744002176 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 582744002177 dimerization interface [polypeptide binding]; other site 582744002178 active site 582744002179 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 582744002180 Lumazine binding domain; Region: Lum_binding; pfam00677 582744002181 Lumazine binding domain; Region: Lum_binding; pfam00677 582744002182 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 582744002183 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 582744002184 FtsX-like permease family; Region: FtsX; pfam02687 582744002185 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 582744002186 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 582744002187 Walker A/P-loop; other site 582744002188 ATP binding site [chemical binding]; other site 582744002189 Q-loop/lid; other site 582744002190 ABC transporter signature motif; other site 582744002191 Walker B; other site 582744002192 D-loop; other site 582744002193 H-loop/switch region; other site 582744002194 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 582744002195 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 582744002196 Competence protein; Region: Competence; pfam03772 582744002197 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 582744002198 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 582744002199 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 582744002200 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 582744002201 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 582744002202 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 582744002203 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 582744002204 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 582744002205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 582744002206 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 582744002207 Walker A/P-loop; other site 582744002208 ATP binding site [chemical binding]; other site 582744002209 Q-loop/lid; other site 582744002210 ABC transporter signature motif; other site 582744002211 Walker B; other site 582744002212 D-loop; other site 582744002213 H-loop/switch region; other site 582744002214 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 582744002215 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 582744002216 Uncharacterized conserved protein [Function unknown]; Region: COG2835 582744002217 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 582744002218 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 582744002219 Ligand binding site; other site 582744002220 oligomer interface; other site 582744002221 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 582744002222 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 582744002223 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 582744002224 active site 582744002225 catalytic site [active] 582744002226 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 582744002227 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 582744002228 P-loop; other site 582744002229 Magnesium ion binding site [ion binding]; other site 582744002230 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 582744002231 Magnesium ion binding site [ion binding]; other site 582744002232 methionine sulfoxide reductase A; Provisional; Region: PRK14054 582744002233 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 582744002234 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 582744002235 oligomer interface [polypeptide binding]; other site 582744002236 metal binding site [ion binding]; metal-binding site 582744002237 metal binding site [ion binding]; metal-binding site 582744002238 Cl binding site [ion binding]; other site 582744002239 aspartate ring; other site 582744002240 basic sphincter; other site 582744002241 putative hydrophobic gate; other site 582744002242 periplasmic entrance; other site 582744002243 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 582744002244 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 582744002245 dimer interface [polypeptide binding]; other site 582744002246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744002247 catalytic residue [active] 582744002248 FimV N-terminal domain; Region: FimV_core; TIGR03505 582744002249 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 582744002250 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 582744002251 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 582744002252 active site 582744002253 HIGH motif; other site 582744002254 nucleotide binding site [chemical binding]; other site 582744002255 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 582744002256 active site 582744002257 KMSKS motif; other site 582744002258 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 582744002259 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 582744002260 Biotin operon repressor [Transcription]; Region: BirA; COG1654 582744002261 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 582744002262 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 582744002263 Type III pantothenate kinase; Region: Pan_kinase; cl17198 582744002264 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 582744002265 E3 interaction surface; other site 582744002266 lipoyl attachment site [posttranslational modification]; other site 582744002267 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 582744002268 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 582744002269 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 582744002270 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 582744002271 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 582744002272 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 582744002273 E3 interaction surface; other site 582744002274 lipoyl attachment site [posttranslational modification]; other site 582744002275 e3 binding domain; Region: E3_binding; pfam02817 582744002276 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 582744002277 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 582744002278 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 582744002279 dimer interface [polypeptide binding]; other site 582744002280 TPP-binding site [chemical binding]; other site 582744002281 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 582744002282 interface (dimer of trimers) [polypeptide binding]; other site 582744002283 Substrate-binding/catalytic site; other site 582744002284 Zn-binding sites [ion binding]; other site 582744002285 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 582744002286 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 582744002287 ligand binding site [chemical binding]; other site 582744002288 flexible hinge region; other site 582744002289 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 582744002290 non-specific DNA interactions [nucleotide binding]; other site 582744002291 DNA binding site [nucleotide binding] 582744002292 sequence specific DNA binding site [nucleotide binding]; other site 582744002293 putative cAMP binding site [chemical binding]; other site 582744002294 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 582744002295 TrkA-N domain; Region: TrkA_N; pfam02254 582744002296 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 582744002297 TrkA-N domain; Region: TrkA_N; pfam02254 582744002298 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 582744002299 putative active site [active] 582744002300 putative metal binding residues [ion binding]; other site 582744002301 signature motif; other site 582744002302 putative triphosphate binding site [ion binding]; other site 582744002303 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 582744002304 ParA-like protein; Provisional; Region: PHA02518 582744002305 P-loop; other site 582744002306 Magnesium ion binding site [ion binding]; other site 582744002307 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 582744002308 catalytic core [active] 582744002309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 582744002310 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 582744002311 DHH family; Region: DHH; pfam01368 582744002312 DHHA1 domain; Region: DHHA1; pfam02272 582744002313 triosephosphate isomerase; Provisional; Region: PRK14567 582744002314 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 582744002315 substrate binding site [chemical binding]; other site 582744002316 dimer interface [polypeptide binding]; other site 582744002317 catalytic triad [active] 582744002318 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 582744002319 NADH dehydrogenase subunit B; Validated; Region: PRK06411 582744002320 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 582744002321 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 582744002322 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 582744002323 NADH dehydrogenase subunit D; Validated; Region: PRK06075 582744002324 NADH dehydrogenase subunit E; Validated; Region: PRK07539 582744002325 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 582744002326 putative dimer interface [polypeptide binding]; other site 582744002327 [2Fe-2S] cluster binding site [ion binding]; other site 582744002328 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 582744002329 SLBB domain; Region: SLBB; pfam10531 582744002330 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 582744002331 NADH dehydrogenase subunit G; Validated; Region: PRK09129 582744002332 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 582744002333 catalytic loop [active] 582744002334 iron binding site [ion binding]; other site 582744002335 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 582744002336 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 582744002337 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 582744002338 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 582744002339 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 582744002340 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 582744002341 4Fe-4S binding domain; Region: Fer4; pfam00037 582744002342 4Fe-4S binding domain; Region: Fer4; pfam00037 582744002343 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 582744002344 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 582744002345 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 582744002346 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 582744002347 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 582744002348 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 582744002349 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 582744002350 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 582744002351 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 582744002352 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 582744002353 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 582744002354 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 582744002355 dimer interface [polypeptide binding]; other site 582744002356 ADP-ribose binding site [chemical binding]; other site 582744002357 active site 582744002358 nudix motif; other site 582744002359 metal binding site [ion binding]; metal-binding site 582744002360 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 582744002361 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 582744002362 putative NAD(P) binding site [chemical binding]; other site 582744002363 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 582744002364 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744002365 catalytic residue [active] 582744002366 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 582744002367 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002368 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002369 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002370 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002371 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002372 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002373 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 582744002374 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 582744002375 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 582744002376 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 582744002377 putative ligand binding site [chemical binding]; other site 582744002378 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 582744002379 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 582744002380 TM-ABC transporter signature motif; other site 582744002381 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 582744002382 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 582744002383 TM-ABC transporter signature motif; other site 582744002384 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 582744002385 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 582744002386 Walker A/P-loop; other site 582744002387 ATP binding site [chemical binding]; other site 582744002388 Q-loop/lid; other site 582744002389 ABC transporter signature motif; other site 582744002390 Walker B; other site 582744002391 D-loop; other site 582744002392 H-loop/switch region; other site 582744002393 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 582744002394 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 582744002395 Walker A/P-loop; other site 582744002396 ATP binding site [chemical binding]; other site 582744002397 Q-loop/lid; other site 582744002398 ABC transporter signature motif; other site 582744002399 Walker B; other site 582744002400 D-loop; other site 582744002401 H-loop/switch region; other site 582744002402 UreD urease accessory protein; Region: UreD; pfam01774 582744002403 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 582744002404 alpha-gamma subunit interface [polypeptide binding]; other site 582744002405 beta-gamma subunit interface [polypeptide binding]; other site 582744002406 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 582744002407 gamma-beta subunit interface [polypeptide binding]; other site 582744002408 alpha-beta subunit interface [polypeptide binding]; other site 582744002409 urease subunit alpha; Reviewed; Region: ureC; PRK13207 582744002410 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 582744002411 subunit interactions [polypeptide binding]; other site 582744002412 active site 582744002413 flap region; other site 582744002414 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 582744002415 dimer interface [polypeptide binding]; other site 582744002416 catalytic residues [active] 582744002417 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 582744002418 UreF; Region: UreF; pfam01730 582744002419 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 582744002420 G1 box; other site 582744002421 GTP/Mg2+ binding site [chemical binding]; other site 582744002422 G2 box; other site 582744002423 Switch I region; other site 582744002424 G3 box; other site 582744002425 Switch II region; other site 582744002426 G4 box; other site 582744002427 G5 box; other site 582744002428 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 582744002429 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 582744002430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744002431 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 582744002432 dimer interface [polypeptide binding]; other site 582744002433 phosphorylation site [posttranslational modification] 582744002434 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 582744002435 ATP binding site [chemical binding]; other site 582744002436 Mg2+ binding site [ion binding]; other site 582744002437 G-X-G motif; other site 582744002438 Response regulator receiver domain; Region: Response_reg; pfam00072 582744002439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002440 active site 582744002441 phosphorylation site [posttranslational modification] 582744002442 intermolecular recognition site; other site 582744002443 dimerization interface [polypeptide binding]; other site 582744002444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002445 active site 582744002446 phosphorylation site [posttranslational modification] 582744002447 intermolecular recognition site; other site 582744002448 dimerization interface [polypeptide binding]; other site 582744002449 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 582744002450 DNA binding residues [nucleotide binding] 582744002451 dimerization interface [polypeptide binding]; other site 582744002452 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 582744002453 Catalytic domain of Protein Kinases; Region: PKc; cd00180 582744002454 active site 582744002455 ATP binding site [chemical binding]; other site 582744002456 substrate binding site [chemical binding]; other site 582744002457 activation loop (A-loop); other site 582744002458 HDOD domain; Region: HDOD; pfam08668 582744002459 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 582744002460 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 582744002461 endonuclease III; Region: ENDO3c; smart00478 582744002462 minor groove reading motif; other site 582744002463 helix-hairpin-helix signature motif; other site 582744002464 substrate binding pocket [chemical binding]; other site 582744002465 active site 582744002466 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 582744002467 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 582744002468 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 582744002469 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 582744002470 active site 582744002471 dimer interface [polypeptide binding]; other site 582744002472 motif 1; other site 582744002473 motif 2; other site 582744002474 motif 3; other site 582744002475 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 582744002476 anticodon binding site; other site 582744002477 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 582744002478 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 582744002479 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 582744002480 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 582744002481 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 582744002482 23S rRNA binding site [nucleotide binding]; other site 582744002483 L21 binding site [polypeptide binding]; other site 582744002484 L13 binding site [polypeptide binding]; other site 582744002485 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 582744002486 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 582744002487 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 582744002488 dimer interface [polypeptide binding]; other site 582744002489 motif 1; other site 582744002490 active site 582744002491 motif 2; other site 582744002492 motif 3; other site 582744002493 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 582744002494 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 582744002495 putative tRNA-binding site [nucleotide binding]; other site 582744002496 B3/4 domain; Region: B3_4; pfam03483 582744002497 tRNA synthetase B5 domain; Region: B5; smart00874 582744002498 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 582744002499 dimer interface [polypeptide binding]; other site 582744002500 motif 1; other site 582744002501 motif 3; other site 582744002502 motif 2; other site 582744002503 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 582744002504 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 582744002505 IHF - DNA interface [nucleotide binding]; other site 582744002506 IHF dimer interface [polypeptide binding]; other site 582744002507 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 582744002508 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 582744002509 DNA binding residues [nucleotide binding] 582744002510 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 582744002511 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 582744002512 N-terminal plug; other site 582744002513 ligand-binding site [chemical binding]; other site 582744002514 DEAD-like helicases superfamily; Region: DEXDc; smart00487 582744002515 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; cl17251 582744002516 ATP binding site [chemical binding]; other site 582744002517 putative Mg++ binding site [ion binding]; other site 582744002518 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 582744002519 nucleotide binding region [chemical binding]; other site 582744002520 ATP-binding site [chemical binding]; other site 582744002521 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 582744002522 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 582744002523 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 582744002524 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744002525 Walker A motif; other site 582744002526 ATP binding site [chemical binding]; other site 582744002527 Walker B motif; other site 582744002528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744002529 putative substrate translocation pore; other site 582744002530 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 582744002531 HAMP domain; Region: HAMP; pfam00672 582744002532 dimerization interface [polypeptide binding]; other site 582744002533 Histidine kinase; Region: HisKA_3; pfam07730 582744002534 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 582744002535 ATP binding site [chemical binding]; other site 582744002536 Mg2+ binding site [ion binding]; other site 582744002537 G-X-G motif; other site 582744002538 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744002539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002540 active site 582744002541 phosphorylation site [posttranslational modification] 582744002542 intermolecular recognition site; other site 582744002543 dimerization interface [polypeptide binding]; other site 582744002544 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 582744002545 DNA binding residues [nucleotide binding] 582744002546 dimerization interface [polypeptide binding]; other site 582744002547 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744002548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002549 active site 582744002550 phosphorylation site [posttranslational modification] 582744002551 intermolecular recognition site; other site 582744002552 dimerization interface [polypeptide binding]; other site 582744002553 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 582744002554 DNA binding residues [nucleotide binding] 582744002555 dimerization interface [polypeptide binding]; other site 582744002556 PAS domain; Region: PAS_9; pfam13426 582744002557 Histidine kinase; Region: HisKA_3; pfam07730 582744002558 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 582744002559 ATP binding site [chemical binding]; other site 582744002560 Mg2+ binding site [ion binding]; other site 582744002561 G-X-G motif; other site 582744002562 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 582744002563 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 582744002564 Trp docking motif [polypeptide binding]; other site 582744002565 dimer interface [polypeptide binding]; other site 582744002566 active site 582744002567 small subunit binding site [polypeptide binding]; other site 582744002568 methanol oxidation system protein MoxJ; Region: ABC_MoxJ; TIGR03870 582744002569 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 582744002570 substrate binding pocket [chemical binding]; other site 582744002571 membrane-bound complex binding site; other site 582744002572 hinge residues; other site 582744002573 cytochrome c(L), periplasmic; Region: cytochrome_MoxG; TIGR03872 582744002574 Methanol dehydrogenase beta subunit; Region: MDH; pfam02315 582744002575 MoxR-like ATPases [General function prediction only]; Region: COG0714 582744002576 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; cl17189 582744002577 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 582744002578 Protein of unknown function DUF58; Region: DUF58; pfam01882 582744002579 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; cd00198 582744002580 metal ion-dependent adhesion site (MIDAS); other site 582744002581 von Willebrand factor type A domain; Region: VWA_2; pfam13519 582744002582 metal ion-dependent adhesion site (MIDAS); other site 582744002583 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 582744002584 putative hydrophobic ligand binding site [chemical binding]; other site 582744002585 protein interface [polypeptide binding]; other site 582744002586 gate; other site 582744002587 PAS fold; Region: PAS_3; pfam08447 582744002588 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 582744002589 Histidine kinase; Region: HisKA_3; pfam07730 582744002590 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 582744002591 ATP binding site [chemical binding]; other site 582744002592 Mg2+ binding site [ion binding]; other site 582744002593 G-X-G motif; other site 582744002594 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744002595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002596 active site 582744002597 phosphorylation site [posttranslational modification] 582744002598 intermolecular recognition site; other site 582744002599 dimerization interface [polypeptide binding]; other site 582744002600 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 582744002601 DNA binding residues [nucleotide binding] 582744002602 dimerization interface [polypeptide binding]; other site 582744002603 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 582744002604 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 582744002605 FlaG protein; Region: FlaG; pfam03646 582744002606 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 582744002607 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 582744002608 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 582744002609 flagellar protein FliS; Validated; Region: fliS; PRK05685 582744002610 Flagellar protein FliT; Region: FliT; pfam05400 582744002611 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 582744002612 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 582744002613 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 582744002614 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 582744002615 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 582744002616 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 582744002617 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 582744002618 FliG C-terminal domain; Region: FliG_C; pfam01706 582744002619 flagellar assembly protein H; Validated; Region: fliH; PRK05687 582744002620 Flagellar assembly protein FliH; Region: FliH; pfam02108 582744002621 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 582744002622 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 582744002623 Walker A motif/ATP binding site; other site 582744002624 Walker B motif; other site 582744002625 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 582744002626 Flagellar FliJ protein; Region: FliJ; pfam02050 582744002627 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 582744002628 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 582744002629 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 582744002630 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 582744002631 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 582744002632 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 582744002633 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 582744002634 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 582744002635 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 582744002636 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 582744002637 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 582744002638 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 582744002639 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 582744002640 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 582744002641 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 582744002642 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 582744002643 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 582744002644 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 582744002645 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 582744002646 Flagellar L-ring protein; Region: FlgH; pfam02107 582744002647 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 582744002648 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 582744002649 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 582744002650 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 582744002651 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 582744002652 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 582744002653 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 582744002654 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 582744002655 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 582744002656 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 582744002657 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 582744002658 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 582744002659 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 582744002660 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 582744002661 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 582744002662 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 582744002663 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 582744002664 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 582744002665 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 582744002666 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 582744002667 FlgN protein; Region: FlgN; pfam05130 582744002668 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 582744002669 MgtC family; Region: MgtC; pfam02308 582744002670 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 582744002671 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 582744002672 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 582744002673 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 582744002674 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 582744002675 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 582744002676 ligand binding site [chemical binding]; other site 582744002677 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 582744002678 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 582744002679 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 582744002680 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744002681 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 582744002682 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 582744002683 DNA binding residues [nucleotide binding] 582744002684 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 582744002685 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 582744002686 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 582744002687 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 582744002688 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 582744002689 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 582744002690 FHIPEP family; Region: FHIPEP; pfam00771 582744002691 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 582744002692 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 582744002693 transcriptional activator FlhD; Provisional; Region: PRK02909 582744002694 transcriptional activator FlhC; Provisional; Region: PRK12722 582744002695 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 582744002696 S-adenosylmethionine binding site [chemical binding]; other site 582744002697 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744002698 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 582744002699 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 582744002700 N-terminal plug; other site 582744002701 ligand-binding site [chemical binding]; other site 582744002702 fec operon regulator FecR; Reviewed; Region: PRK09774 582744002703 FecR protein; Region: FecR; pfam04773 582744002704 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 582744002705 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744002706 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 582744002707 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 582744002708 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 582744002709 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744002710 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 582744002711 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 582744002712 N-terminal plug; other site 582744002713 ligand-binding site [chemical binding]; other site 582744002714 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 582744002715 FecR protein; Region: FecR; pfam04773 582744002716 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 582744002717 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744002718 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 582744002719 DNA binding residues [nucleotide binding] 582744002720 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 582744002721 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 582744002722 N-terminal plug; other site 582744002723 ligand-binding site [chemical binding]; other site 582744002724 fec operon regulator FecR; Reviewed; Region: PRK09774 582744002725 FecR protein; Region: FecR; pfam04773 582744002726 RNA polymerase sigma factor; Provisional; Region: PRK12528 582744002727 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744002728 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 582744002729 DNA binding residues [nucleotide binding] 582744002730 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 582744002731 flagellar motor protein MotA; Validated; Region: PRK09110 582744002732 flagellar motor protein MotB; Validated; Region: motB; PRK09041 582744002733 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 582744002734 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 582744002735 ligand binding site [chemical binding]; other site 582744002736 Response regulator receiver domain; Region: Response_reg; pfam00072 582744002737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002738 active site 582744002739 phosphorylation site [posttranslational modification] 582744002740 intermolecular recognition site; other site 582744002741 dimerization interface [polypeptide binding]; other site 582744002742 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 582744002743 putative binding surface; other site 582744002744 active site 582744002745 CheY binding; Region: CheY-binding; pfam09078 582744002746 CheY binding; Region: CheY-binding; pfam09078 582744002747 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 582744002748 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 582744002749 ATP binding site [chemical binding]; other site 582744002750 Mg2+ binding site [ion binding]; other site 582744002751 G-X-G motif; other site 582744002752 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 582744002753 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 582744002754 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 582744002755 PAS domain; Region: PAS_9; pfam13426 582744002756 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 582744002757 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744002758 dimer interface [polypeptide binding]; other site 582744002759 putative CheW interface [polypeptide binding]; other site 582744002760 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 582744002761 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 582744002762 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 582744002763 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744002764 dimer interface [polypeptide binding]; other site 582744002765 putative CheW interface [polypeptide binding]; other site 582744002766 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 582744002767 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 582744002768 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 582744002769 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 582744002770 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 582744002771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002772 active site 582744002773 phosphorylation site [posttranslational modification] 582744002774 intermolecular recognition site; other site 582744002775 dimerization interface [polypeptide binding]; other site 582744002776 CheB methylesterase; Region: CheB_methylest; pfam01339 582744002777 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 582744002778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002779 active site 582744002780 phosphorylation site [posttranslational modification] 582744002781 intermolecular recognition site; other site 582744002782 dimerization interface [polypeptide binding]; other site 582744002783 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 582744002784 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 582744002785 metal-binding site [ion binding] 582744002786 phosphoglucomutase; Region: PLN02307 582744002787 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 582744002788 substrate binding site [chemical binding]; other site 582744002789 dimer interface [polypeptide binding]; other site 582744002790 active site 582744002791 metal binding site [ion binding]; metal-binding site 582744002792 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 582744002793 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 582744002794 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 582744002795 Walker A/P-loop; other site 582744002796 ATP binding site [chemical binding]; other site 582744002797 Q-loop/lid; other site 582744002798 ABC transporter signature motif; other site 582744002799 Walker B; other site 582744002800 D-loop; other site 582744002801 H-loop/switch region; other site 582744002802 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 582744002803 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744002804 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744002805 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 582744002806 putative ADP-binding pocket [chemical binding]; other site 582744002807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 582744002808 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 582744002809 catalytic motif [active] 582744002810 Catalytic residue [active] 582744002811 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 582744002812 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 582744002813 active site 582744002814 substrate binding site [chemical binding]; other site 582744002815 metal binding site [ion binding]; metal-binding site 582744002816 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 582744002817 HemN C-terminal domain; Region: HemN_C; pfam06969 582744002818 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 582744002819 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 582744002820 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 582744002821 active site 582744002822 FMN binding site [chemical binding]; other site 582744002823 substrate binding site [chemical binding]; other site 582744002824 homotetramer interface [polypeptide binding]; other site 582744002825 catalytic residue [active] 582744002826 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 582744002827 Fumarase C-terminus; Region: Fumerase_C; pfam05683 582744002828 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 582744002829 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 582744002830 dimer interface [polypeptide binding]; other site 582744002831 active site 582744002832 glycine-pyridoxal phosphate binding site [chemical binding]; other site 582744002833 folate binding site [chemical binding]; other site 582744002834 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 582744002835 ATP cone domain; Region: ATP-cone; pfam03477 582744002836 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 582744002837 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 582744002838 catalytic motif [active] 582744002839 Zn binding site [ion binding]; other site 582744002840 RibD C-terminal domain; Region: RibD_C; cl17279 582744002841 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 582744002842 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 582744002843 active site 582744002844 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 582744002845 binding surface 582744002846 TPR motif; other site 582744002847 TPR repeat; Region: TPR_11; pfam13414 582744002848 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 582744002849 binding surface 582744002850 TPR motif; other site 582744002851 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 582744002852 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 582744002853 binding surface 582744002854 TPR motif; other site 582744002855 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 582744002856 binding surface 582744002857 TPR motif; other site 582744002858 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 582744002859 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 582744002860 binding surface 582744002861 TPR motif; other site 582744002862 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 582744002863 binding surface 582744002864 TPR motif; other site 582744002865 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 582744002866 binding surface 582744002867 TPR motif; other site 582744002868 Tetratricopeptide repeat; Region: TPR_12; pfam13424 582744002869 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 582744002870 binding surface 582744002871 TPR motif; other site 582744002872 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 582744002873 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 582744002874 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 582744002875 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 582744002876 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744002877 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 582744002878 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744002879 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 582744002880 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 582744002881 Pilus assembly protein, PilO; Region: PilO; cl01234 582744002882 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 582744002883 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 582744002884 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 582744002885 Walker A motif; other site 582744002886 ATP binding site [chemical binding]; other site 582744002887 Walker B motif; other site 582744002888 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 582744002889 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744002890 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744002891 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 582744002892 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 582744002893 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 582744002894 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 582744002895 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 582744002896 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 582744002897 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 582744002898 SnoaL-like domain; Region: SnoaL_3; pfam13474 582744002899 Autotransporter beta-domain; Region: Autotransporter; smart00869 582744002900 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 582744002901 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 582744002902 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 582744002903 intersubunit interface [polypeptide binding]; other site 582744002904 active site 582744002905 Zn2+ binding site [ion binding]; other site 582744002906 Uncharacterized conserved protein [Function unknown]; Region: COG0062 582744002907 putative carbohydrate kinase; Provisional; Region: PRK10565 582744002908 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 582744002909 putative substrate binding site [chemical binding]; other site 582744002910 putative ATP binding site [chemical binding]; other site 582744002911 CTP synthetase; Validated; Region: pyrG; PRK05380 582744002912 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 582744002913 Catalytic site [active] 582744002914 active site 582744002915 UTP binding site [chemical binding]; other site 582744002916 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 582744002917 active site 582744002918 putative oxyanion hole; other site 582744002919 catalytic triad [active] 582744002920 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 582744002921 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 582744002922 enolase; Provisional; Region: eno; PRK00077 582744002923 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 582744002924 dimer interface [polypeptide binding]; other site 582744002925 metal binding site [ion binding]; metal-binding site 582744002926 substrate binding pocket [chemical binding]; other site 582744002927 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 582744002928 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 582744002929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744002930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744002931 metal binding site [ion binding]; metal-binding site 582744002932 active site 582744002933 I-site; other site 582744002934 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002935 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744002936 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 582744002937 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 582744002938 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 582744002939 von Willebrand factor type A domain; Region: VWA_2; pfam13519 582744002940 metal ion-dependent adhesion site (MIDAS); other site 582744002941 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; cd00198 582744002942 metal ion-dependent adhesion site (MIDAS); other site 582744002943 Protein of unknown function DUF58; Region: DUF58; pfam01882 582744002944 MoxR-like ATPases [General function prediction only]; Region: COG0714 582744002945 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 582744002946 Walker A motif; other site 582744002947 ATP binding site [chemical binding]; other site 582744002948 Walker B motif; other site 582744002949 arginine finger; other site 582744002950 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 582744002951 active site 1 [active] 582744002952 dimer interface [polypeptide binding]; other site 582744002953 active site 2 [active] 582744002954 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 582744002955 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 582744002956 dimer interface [polypeptide binding]; other site 582744002957 active site 582744002958 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 582744002959 aminotransferase AlaT; Validated; Region: PRK09265 582744002960 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 582744002961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744002962 homodimer interface [polypeptide binding]; other site 582744002963 catalytic residue [active] 582744002964 homoserine dehydrogenase; Provisional; Region: PRK06349 582744002965 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 582744002966 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 582744002967 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 582744002968 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 582744002969 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 582744002970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744002971 catalytic residue [active] 582744002972 thymidylate synthase; Reviewed; Region: thyA; PRK01827 582744002973 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 582744002974 dimerization interface [polypeptide binding]; other site 582744002975 active site 582744002976 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 582744002977 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 582744002978 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 582744002979 EF-hand domain pair; Region: EF_hand_5; pfam13499 582744002980 Ca2+ binding site [ion binding]; other site 582744002981 BON domain; Region: BON; pfam04972 582744002982 response regulator GlrR; Provisional; Region: PRK15115 582744002983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744002984 active site 582744002985 phosphorylation site [posttranslational modification] 582744002986 intermolecular recognition site; other site 582744002987 dimerization interface [polypeptide binding]; other site 582744002988 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 582744002989 Walker A motif; other site 582744002990 ATP binding site [chemical binding]; other site 582744002991 Walker B motif; other site 582744002992 arginine finger; other site 582744002993 CHASE3 domain; Region: CHASE3; cl05000 582744002994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744002995 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 582744002996 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 582744002997 dimer interface [polypeptide binding]; other site 582744002998 phosphorylation site [posttranslational modification] 582744002999 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 582744003000 ATP binding site [chemical binding]; other site 582744003001 Mg2+ binding site [ion binding]; other site 582744003002 G-X-G motif; other site 582744003003 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 582744003004 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 582744003005 folate binding site [chemical binding]; other site 582744003006 NADP+ binding site [chemical binding]; other site 582744003007 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 582744003008 binding surface 582744003009 TPR motif; other site 582744003010 Tetratricopeptide repeat; Region: TPR_12; pfam13424 582744003011 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 582744003012 TPR motif; other site 582744003013 binding surface 582744003014 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 582744003015 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 582744003016 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 582744003017 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 582744003018 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744003019 catalytic residue [active] 582744003020 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 582744003021 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 582744003022 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 582744003023 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 582744003024 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 582744003025 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 582744003026 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 582744003027 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 582744003028 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 582744003029 RNB domain; Region: RNB; pfam00773 582744003030 spermidine synthase; Provisional; Region: PRK04457 582744003031 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 582744003032 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 582744003033 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; cl17173 582744003034 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 582744003035 homodimer interface [polypeptide binding]; other site 582744003036 chemical substrate binding site [chemical binding]; other site 582744003037 oligomer interface [polypeptide binding]; other site 582744003038 metal binding site [ion binding]; metal-binding site 582744003039 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 582744003040 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 582744003041 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 582744003042 dimerization interface [polypeptide binding]; other site 582744003043 ATP binding site [chemical binding]; other site 582744003044 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 582744003045 dimerization interface [polypeptide binding]; other site 582744003046 ATP binding site [chemical binding]; other site 582744003047 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 582744003048 putative active site [active] 582744003049 catalytic triad [active] 582744003050 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 582744003051 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 582744003052 Cytochrome c553 [Energy production and conversion]; Region: COG2863 582744003053 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 582744003054 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 582744003055 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 582744003056 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 582744003057 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 582744003058 phosphoserine phosphatase SerB; Region: serB; TIGR00338 582744003059 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 582744003060 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 582744003061 motif II; other site 582744003062 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 582744003063 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 582744003064 CoA-ligase; Region: Ligase_CoA; pfam00549 582744003065 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 582744003066 CoA binding domain; Region: CoA_binding; pfam02629 582744003067 CoA-ligase; Region: Ligase_CoA; pfam00549 582744003068 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 582744003069 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 582744003070 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 582744003071 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 582744003072 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 582744003073 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 582744003074 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 582744003075 NAD synthetase; Provisional; Region: PRK13981 582744003076 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 582744003077 multimer interface [polypeptide binding]; other site 582744003078 active site 582744003079 catalytic triad [active] 582744003080 protein interface 1 [polypeptide binding]; other site 582744003081 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 582744003082 homodimer interface [polypeptide binding]; other site 582744003083 NAD binding pocket [chemical binding]; other site 582744003084 ATP binding pocket [chemical binding]; other site 582744003085 Mg binding site [ion binding]; other site 582744003086 active-site loop [active] 582744003087 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 582744003088 Nitrogen regulatory protein P-II; Region: P-II; smart00938 582744003089 Protein of unknown function, DUF486; Region: DUF486; cl01236 582744003090 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 582744003091 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 582744003092 G1 box; other site 582744003093 GTP/Mg2+ binding site [chemical binding]; other site 582744003094 Switch I region; other site 582744003095 G2 box; other site 582744003096 G3 box; other site 582744003097 Switch II region; other site 582744003098 G4 box; other site 582744003099 G5 box; other site 582744003100 Nucleoside recognition; Region: Gate; pfam07670 582744003101 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 582744003102 Nucleoside recognition; Region: Gate; pfam07670 582744003103 FeoA domain; Region: FeoA; pfam04023 582744003104 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 582744003105 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 582744003106 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 582744003107 SurA N-terminal domain; Region: SurA_N_3; cl07813 582744003108 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 582744003109 BolA-like protein; Region: BolA; pfam01722 582744003110 YciI-like protein; Reviewed; Region: PRK11370 582744003111 intracellular septation protein A; Reviewed; Region: PRK00259 582744003112 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 582744003113 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 582744003114 active site 582744003115 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 582744003116 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 582744003117 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 582744003118 Peptidase family M50; Region: Peptidase_M50; pfam02163 582744003119 active site 582744003120 putative substrate binding region [chemical binding]; other site 582744003121 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 582744003122 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 582744003123 active site 582744003124 HIGH motif; other site 582744003125 dimer interface [polypeptide binding]; other site 582744003126 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 582744003127 active site 582744003128 KMSKS motif; other site 582744003129 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 582744003130 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 582744003131 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 582744003132 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 582744003133 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 582744003134 RNA binding surface [nucleotide binding]; other site 582744003135 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 582744003136 probable active site [active] 582744003137 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744003138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003139 metal binding site [ion binding]; metal-binding site 582744003140 active site 582744003141 I-site; other site 582744003142 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 582744003143 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 582744003144 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 582744003145 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 582744003146 N-terminal plug; other site 582744003147 ligand-binding site [chemical binding]; other site 582744003148 HemK family putative methylases; Region: hemK_fam; TIGR00536 582744003149 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 582744003150 S-adenosylmethionine binding site [chemical binding]; other site 582744003151 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 582744003152 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 582744003153 metal binding site [ion binding]; metal-binding site 582744003154 dimer interface [polypeptide binding]; other site 582744003155 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 582744003156 ArsC family; Region: ArsC; pfam03960 582744003157 putative catalytic residues [active] 582744003158 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 582744003159 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 582744003160 trimer interface [polypeptide binding]; other site 582744003161 active site 582744003162 substrate binding site [chemical binding]; other site 582744003163 CoA binding site [chemical binding]; other site 582744003164 Peptidase family M48; Region: Peptidase_M48; pfam01435 582744003165 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 582744003166 potassium uptake protein; Region: kup; TIGR00794 582744003167 PEP-CTERM motif; Region: VPEP; pfam07589 582744003168 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 582744003169 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 582744003170 generic binding surface II; other site 582744003171 generic binding surface I; other site 582744003172 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 582744003173 cysteine synthase B; Region: cysM; TIGR01138 582744003174 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 582744003175 dimer interface [polypeptide binding]; other site 582744003176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744003177 catalytic residue [active] 582744003178 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 582744003179 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 582744003180 active site 582744003181 catalytic site [active] 582744003182 substrate binding site [chemical binding]; other site 582744003183 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 582744003184 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 582744003185 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 582744003186 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 582744003187 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 582744003188 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 582744003189 dimer interface [polypeptide binding]; other site 582744003190 conserved gate region; other site 582744003191 putative PBP binding loops; other site 582744003192 ABC-ATPase subunit interface; other site 582744003193 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 582744003194 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 582744003195 Walker A/P-loop; other site 582744003196 ATP binding site [chemical binding]; other site 582744003197 Q-loop/lid; other site 582744003198 ABC transporter signature motif; other site 582744003199 Walker B; other site 582744003200 D-loop; other site 582744003201 H-loop/switch region; other site 582744003202 Creatinine amidohydrolase; Region: Creatininase; pfam02633 582744003203 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 582744003204 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 582744003205 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 582744003206 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 582744003207 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 582744003208 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 582744003209 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 582744003210 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 582744003211 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 582744003212 urea carboxylase; Region: urea_carbox; TIGR02712 582744003213 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 582744003214 ATP-grasp domain; Region: ATP-grasp_4; cl17255 582744003215 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 582744003216 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 582744003217 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 582744003218 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 582744003219 carboxyltransferase (CT) interaction site; other site 582744003220 biotinylation site [posttranslational modification]; other site 582744003221 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 582744003222 ethanolamine permease; Region: 2A0305; TIGR00908 582744003223 hypothetical protein; Provisional; Region: PHA02764 582744003224 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 582744003225 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 582744003226 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 582744003227 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 582744003228 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 582744003229 HSP70 interaction site [polypeptide binding]; other site 582744003230 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 582744003231 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 582744003232 Helix-turn-helix domain; Region: HTH_18; pfam12833 582744003233 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 582744003234 TRAM domain; Region: TRAM; cl01282 582744003235 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 582744003236 S-adenosylmethionine binding site [chemical binding]; other site 582744003237 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 582744003238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744003239 Coenzyme A binding pocket [chemical binding]; other site 582744003240 Isochorismatase family; Region: Isochorismatase; pfam00857 582744003241 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 582744003242 catalytic triad [active] 582744003243 conserved cis-peptide bond; other site 582744003244 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 582744003245 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 582744003246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 582744003247 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 582744003248 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 582744003249 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 582744003250 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 582744003251 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 582744003252 putative PBP binding loops; other site 582744003253 dimer interface [polypeptide binding]; other site 582744003254 ABC-ATPase subunit interface; other site 582744003255 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 582744003256 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 582744003257 dimer interface [polypeptide binding]; other site 582744003258 conserved gate region; other site 582744003259 putative PBP binding loops; other site 582744003260 ABC-ATPase subunit interface; other site 582744003261 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 582744003262 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 582744003263 beta-hexosaminidase; Provisional; Region: PRK05337 582744003264 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 582744003265 YccA-like proteins; Region: YccA_like; cd10433 582744003266 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 582744003267 nucleoside/Zn binding site; other site 582744003268 dimer interface [polypeptide binding]; other site 582744003269 catalytic motif [active] 582744003270 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 582744003271 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 582744003272 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 582744003273 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 582744003274 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 582744003275 Protein of unknown function DUF58; Region: DUF58; pfam01882 582744003276 MoxR-like ATPases [General function prediction only]; Region: COG0714 582744003277 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 582744003278 Walker A motif; other site 582744003279 ATP binding site [chemical binding]; other site 582744003280 Walker B motif; other site 582744003281 arginine finger; other site 582744003282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744003283 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 582744003284 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 582744003285 dimerization interface [polypeptide binding]; other site 582744003286 Pirin-related protein [General function prediction only]; Region: COG1741 582744003287 Pirin; Region: Pirin; pfam02678 582744003288 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 582744003289 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 582744003290 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 582744003291 YceI-like domain; Region: YceI; cl01001 582744003292 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 582744003293 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 582744003294 FMN binding site [chemical binding]; other site 582744003295 active site 582744003296 substrate binding site [chemical binding]; other site 582744003297 catalytic residue [active] 582744003298 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 582744003299 putative FMN binding site [chemical binding]; other site 582744003300 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 582744003301 catalytic residues [active] 582744003302 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 582744003303 Peptidase family M23; Region: Peptidase_M23; pfam01551 582744003304 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 582744003305 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 582744003306 S-adenosylmethionine binding site [chemical binding]; other site 582744003307 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 582744003308 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 582744003309 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 582744003310 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 582744003311 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 582744003312 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 582744003313 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 582744003314 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 582744003315 putative metal binding site [ion binding]; other site 582744003316 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 582744003317 adenylosuccinate lyase; Provisional; Region: PRK09285 582744003318 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 582744003319 tetramer interface [polypeptide binding]; other site 582744003320 active site 582744003321 EF-hand domain pair; Region: EF_hand_5; pfam13499 582744003322 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 582744003323 PAS domain; Region: PAS_9; pfam13426 582744003324 putative active site [active] 582744003325 heme pocket [chemical binding]; other site 582744003326 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 582744003327 PAS domain; Region: PAS_9; pfam13426 582744003328 putative active site [active] 582744003329 heme pocket [chemical binding]; other site 582744003330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003331 metal binding site [ion binding]; metal-binding site 582744003332 active site 582744003333 I-site; other site 582744003334 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 582744003335 Predicted transcriptional regulator [Transcription]; Region: COG2932 582744003336 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 582744003337 Catalytic site [active] 582744003338 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 582744003339 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 582744003340 substrate binding site [chemical binding]; other site 582744003341 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 582744003342 substrate binding site [chemical binding]; other site 582744003343 ligand binding site [chemical binding]; other site 582744003344 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 582744003345 hypothetical protein; Provisional; Region: PRK05208 582744003346 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 582744003347 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 582744003348 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 582744003349 E-class dimer interface [polypeptide binding]; other site 582744003350 P-class dimer interface [polypeptide binding]; other site 582744003351 active site 582744003352 Cu2+ binding site [ion binding]; other site 582744003353 Zn2+ binding site [ion binding]; other site 582744003354 EF-hand domain pair; Region: EF_hand_5; pfam13499 582744003355 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 582744003356 Ca2+ binding site [ion binding]; other site 582744003357 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 582744003358 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 582744003359 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 582744003360 active site 1 [active] 582744003361 dimer interface [polypeptide binding]; other site 582744003362 hexamer interface [polypeptide binding]; other site 582744003363 active site 2 [active] 582744003364 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 582744003365 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 582744003366 GIY-YIG motif/motif A; other site 582744003367 active site 582744003368 catalytic site [active] 582744003369 putative DNA binding site [nucleotide binding]; other site 582744003370 metal binding site [ion binding]; metal-binding site 582744003371 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 582744003372 Helix-hairpin-helix motif; Region: HHH; pfam00633 582744003373 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 582744003374 psiF repeat; Region: PsiF_repeat; pfam07769 582744003375 psiF repeat; Region: PsiF_repeat; pfam07769 582744003376 psiF repeat; Region: PsiF_repeat; pfam07769 582744003377 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 582744003378 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 582744003379 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 582744003380 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 582744003381 Walker A/P-loop; other site 582744003382 ATP binding site [chemical binding]; other site 582744003383 Q-loop/lid; other site 582744003384 ABC transporter signature motif; other site 582744003385 Walker B; other site 582744003386 D-loop; other site 582744003387 H-loop/switch region; other site 582744003388 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 582744003389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744003390 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744003391 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744003392 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 582744003393 DNA binding residues [nucleotide binding] 582744003394 dimerization interface [polypeptide binding]; other site 582744003395 VCBS repeat; Region: VCBS_repeat; TIGR01965 582744003396 VCBS repeat; Region: VCBS_repeat; TIGR01965 582744003397 VCBS repeat; Region: VCBS_repeat; TIGR01965 582744003398 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 582744003399 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; cd00198 582744003400 metal ion-dependent adhesion site (MIDAS); other site 582744003401 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 582744003402 biofilm formation regulator HmsP; Provisional; Region: PRK11829 582744003403 HAMP domain; Region: HAMP; pfam00672 582744003404 dimerization interface [polypeptide binding]; other site 582744003405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003406 metal binding site [ion binding]; metal-binding site 582744003407 active site 582744003408 I-site; other site 582744003409 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 582744003410 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 582744003411 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 582744003412 SnoaL-like domain; Region: SnoaL_3; pfam13474 582744003413 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 582744003414 DNA photolyase; Region: DNA_photolyase; pfam00875 582744003415 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 582744003416 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 582744003417 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 582744003418 GIY-YIG motif/motif A; other site 582744003419 putative active site [active] 582744003420 putative metal binding site [ion binding]; other site 582744003421 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 582744003422 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 582744003423 dimer interface [polypeptide binding]; other site 582744003424 active site 582744003425 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 582744003426 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 582744003427 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 582744003428 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 582744003429 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 582744003430 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744003431 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744003432 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 582744003433 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 582744003434 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 582744003435 Walker A motif; other site 582744003436 ATP binding site [chemical binding]; other site 582744003437 Walker B motif; other site 582744003438 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 582744003439 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 582744003440 binding surface 582744003441 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744003442 TPR motif; other site 582744003443 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 582744003444 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 582744003445 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 582744003446 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 582744003447 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 582744003448 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 582744003449 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 582744003450 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...; Region: LT_GEWL; cd00254 582744003451 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744003452 catalytic residue [active] 582744003453 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 582744003454 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 582744003455 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 582744003456 catalytic triad [active] 582744003457 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_17; cd08356 582744003458 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 582744003459 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 582744003460 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 582744003461 Chromate transporter; Region: Chromate_transp; pfam02417 582744003462 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 582744003463 PEP-CTERM motif; Region: VPEP; pfam07589 582744003464 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 582744003465 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 582744003466 binding surface 582744003467 TPR motif; other site 582744003468 TPR repeat; Region: TPR_11; pfam13414 582744003469 TPR repeat; Region: TPR_11; pfam13414 582744003470 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 582744003471 binding surface 582744003472 TPR motif; other site 582744003473 TPR repeat; Region: TPR_11; pfam13414 582744003474 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 582744003475 binding surface 582744003476 TPR motif; other site 582744003477 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744003478 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 582744003479 binding surface 582744003480 TPR motif; other site 582744003481 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 582744003482 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 582744003483 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 582744003484 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 582744003485 N-terminal plug; other site 582744003486 ligand-binding site [chemical binding]; other site 582744003487 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 582744003488 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 582744003489 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 582744003490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 582744003491 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 582744003492 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 582744003493 N-terminal plug; other site 582744003494 ligand-binding site [chemical binding]; other site 582744003495 ABC transporter ATPase component; Reviewed; Region: PRK11147 582744003496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744003497 Walker A/P-loop; other site 582744003498 ATP binding site [chemical binding]; other site 582744003499 Q-loop/lid; other site 582744003500 ABC transporter signature motif; other site 582744003501 Walker B; other site 582744003502 D-loop; other site 582744003503 H-loop/switch region; other site 582744003504 ABC transporter; Region: ABC_tran_2; pfam12848 582744003505 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 582744003506 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 582744003507 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 582744003508 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 582744003509 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 582744003510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744003511 active site 582744003512 phosphorylation site [posttranslational modification] 582744003513 intermolecular recognition site; other site 582744003514 dimerization interface [polypeptide binding]; other site 582744003515 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 582744003516 DNA binding site [nucleotide binding] 582744003517 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 582744003518 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 582744003519 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 582744003520 Ligand Binding Site [chemical binding]; other site 582744003521 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 582744003522 GAF domain; Region: GAF_3; pfam13492 582744003523 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 582744003524 dimer interface [polypeptide binding]; other site 582744003525 phosphorylation site [posttranslational modification] 582744003526 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 582744003527 ATP binding site [chemical binding]; other site 582744003528 Mg2+ binding site [ion binding]; other site 582744003529 G-X-G motif; other site 582744003530 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 582744003531 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 582744003532 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 582744003533 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 582744003534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744003535 Major Facilitator Superfamily; Region: MFS_1; pfam07690 582744003536 putative substrate translocation pore; other site 582744003537 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 582744003538 Part of AAA domain; Region: AAA_19; pfam13245 582744003539 Family description; Region: UvrD_C_2; pfam13538 582744003540 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744003541 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003542 metal binding site [ion binding]; metal-binding site 582744003543 active site 582744003544 I-site; other site 582744003545 MEKHLA domain; Region: MEKHLA; pfam08670 582744003546 CHASE3 domain; Region: CHASE3; pfam05227 582744003547 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744003548 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003549 metal binding site [ion binding]; metal-binding site 582744003550 active site 582744003551 I-site; other site 582744003552 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 582744003553 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 582744003554 GTP/Mg2+ binding site [chemical binding]; other site 582744003555 G4 box; other site 582744003556 G5 box; other site 582744003557 G1 box; other site 582744003558 Switch I region; other site 582744003559 G2 box; other site 582744003560 G3 box; other site 582744003561 Switch II region; other site 582744003562 ApbE family; Region: ApbE; pfam02424 582744003563 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 582744003564 FMN-binding domain; Region: FMN_bind; pfam04205 582744003565 Methyltransferase domain; Region: Methyltransf_32; pfam13679 582744003566 Methyltransferase domain; Region: Methyltransf_31; pfam13847 582744003567 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 582744003568 MG2 domain; Region: A2M_N; pfam01835 582744003569 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 582744003570 Alpha-2-macroglobulin family; Region: A2M; pfam00207 582744003571 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 582744003572 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 582744003573 Transglycosylase; Region: Transgly; pfam00912 582744003574 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 582744003575 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 582744003576 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 582744003577 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 582744003578 ATP binding site [chemical binding]; other site 582744003579 putative Mg++ binding site [ion binding]; other site 582744003580 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 582744003581 nucleotide binding region [chemical binding]; other site 582744003582 Helicase associated domain (HA2); Region: HA2; pfam04408 582744003583 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 582744003584 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 582744003585 MarR family; Region: MarR_2; cl17246 582744003586 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 582744003587 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 582744003588 Fusaric acid resistance protein family; Region: FUSC; pfam04632 582744003589 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 582744003590 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 582744003591 HlyD family secretion protein; Region: HlyD; pfam00529 582744003592 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744003593 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744003594 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 582744003595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744003596 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 582744003597 dimerization interface [polypeptide binding]; other site 582744003598 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 582744003599 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 582744003600 THF binding site; other site 582744003601 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 582744003602 substrate binding site [chemical binding]; other site 582744003603 THF binding site; other site 582744003604 zinc-binding site [ion binding]; other site 582744003605 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 582744003606 EamA-like transporter family; Region: EamA; cl17759 582744003607 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 582744003608 ATP cone domain; Region: ATP-cone; pfam03477 582744003609 ATP cone domain; Region: ATP-cone; pfam03477 582744003610 Class I ribonucleotide reductase; Region: RNR_I; cd01679 582744003611 active site 582744003612 dimer interface [polypeptide binding]; other site 582744003613 catalytic residues [active] 582744003614 effector binding site; other site 582744003615 R2 peptide binding site; other site 582744003616 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 582744003617 dimer interface [polypeptide binding]; other site 582744003618 putative radical transfer pathway; other site 582744003619 diiron center [ion binding]; other site 582744003620 tyrosyl radical; other site 582744003621 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 582744003622 DEAD-like helicases superfamily; Region: DEXDc; smart00487 582744003623 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 582744003624 ATP binding site [chemical binding]; other site 582744003625 putative Mg++ binding site [ion binding]; other site 582744003626 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 582744003627 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 582744003628 HsdM N-terminal domain; Region: HsdM_N; pfam12161 582744003629 Methyltransferase domain; Region: Methyltransf_26; pfam13659 582744003630 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 582744003631 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 582744003632 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 582744003633 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 582744003634 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 582744003635 trimer interface [polypeptide binding]; other site 582744003636 active site 582744003637 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 582744003638 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 582744003639 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 582744003640 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 582744003641 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 582744003642 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 582744003643 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 582744003644 putative active site [active] 582744003645 Methyltransferase domain; Region: Methyltransf_12; pfam08242 582744003646 Methyltransferase domain; Region: Methyltransf_23; pfam13489 582744003647 Domain of unknown function DUF59; Region: DUF59; pfam01883 582744003648 antiporter inner membrane protein; Provisional; Region: PRK11670 582744003649 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 582744003650 Walker A motif; other site 582744003651 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 582744003652 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 582744003653 active site 582744003654 HIGH motif; other site 582744003655 KMSKS motif; other site 582744003656 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 582744003657 tRNA binding surface [nucleotide binding]; other site 582744003658 anticodon binding site; other site 582744003659 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 582744003660 dimer interface [polypeptide binding]; other site 582744003661 putative tRNA-binding site [nucleotide binding]; other site 582744003662 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 582744003663 Helix-hairpin-helix motif; Region: HHH; pfam00633 582744003664 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...; Region: OMP_decarboxylase_like; cd04725 582744003665 active site 582744003666 dimer interface [polypeptide binding]; other site 582744003667 tetratricopeptide repeat protein; Provisional; Region: PRK11788 582744003668 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 582744003669 binding surface 582744003670 TPR motif; other site 582744003671 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744003672 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 582744003673 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 582744003674 IHF dimer interface [polypeptide binding]; other site 582744003675 IHF - DNA interface [nucleotide binding]; other site 582744003676 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 582744003677 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 582744003678 RNA binding site [nucleotide binding]; other site 582744003679 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 582744003680 RNA binding site [nucleotide binding]; other site 582744003681 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...; Region: S1_RPS1_repeat_ec3; cd05688 582744003682 RNA binding site [nucleotide binding]; other site 582744003683 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...; Region: S1_RPS1_repeat_ec4; cd05689 582744003684 RNA binding site [nucleotide binding]; other site 582744003685 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...; Region: S1_RPS1_repeat_ec5; cd05690 582744003686 RNA binding site [nucleotide binding]; other site 582744003687 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...; Region: S1_RPS1_repeat_ec6; cd05691 582744003688 RNA binding site [nucleotide binding]; other site 582744003689 cytidylate kinase; Provisional; Region: cmk; PRK00023 582744003690 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 582744003691 CMP-binding site; other site 582744003692 The sites determining sugar specificity; other site 582744003693 Predicted membrane protein [Function unknown]; Region: COG3205 582744003694 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 582744003695 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 582744003696 hinge; other site 582744003697 active site 582744003698 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 582744003699 prephenate dehydrogenase; Validated; Region: PRK08507 582744003700 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 582744003701 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 582744003702 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 582744003703 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 582744003704 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 582744003705 PAS domain; Region: PAS_9; pfam13426 582744003706 putative active site [active] 582744003707 heme pocket [chemical binding]; other site 582744003708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744003709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003710 metal binding site [ion binding]; metal-binding site 582744003711 active site 582744003712 I-site; other site 582744003713 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 582744003714 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744003715 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003716 metal binding site [ion binding]; metal-binding site 582744003717 active site 582744003718 I-site; other site 582744003719 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744003720 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744003721 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 582744003722 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 582744003723 TAP-like protein; Region: Abhydrolase_4; pfam08386 582744003724 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 582744003725 hypothetical protein; Provisional; Region: PRK01254 582744003726 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 582744003727 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 582744003728 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 582744003729 TraB family; Region: TraB; pfam01963 582744003730 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 582744003731 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 582744003732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744003733 active site 582744003734 phosphorylation site [posttranslational modification] 582744003735 intermolecular recognition site; other site 582744003736 dimerization interface [polypeptide binding]; other site 582744003737 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744003738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744003739 active site 582744003740 phosphorylation site [posttranslational modification] 582744003741 intermolecular recognition site; other site 582744003742 dimerization interface [polypeptide binding]; other site 582744003743 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 582744003744 DNA binding residues [nucleotide binding] 582744003745 dimerization interface [polypeptide binding]; other site 582744003746 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 582744003747 Ferritin-like domain; Region: Ferritin; pfam00210 582744003748 dinuclear metal binding motif [ion binding]; other site 582744003749 CHASE3 domain; Region: CHASE3; pfam05227 582744003750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 582744003751 Histidine kinase; Region: HisKA_3; pfam07730 582744003752 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 582744003753 ATP binding site [chemical binding]; other site 582744003754 Mg2+ binding site [ion binding]; other site 582744003755 G-X-G motif; other site 582744003756 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 582744003757 Ca2+ binding site [ion binding]; other site 582744003758 BON domain; Region: BON; pfam04972 582744003759 BON domain; Region: BON; pfam04972 582744003760 BON domain; Region: BON; pfam04972 582744003761 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 582744003762 Ca2+ binding site [ion binding]; other site 582744003763 BON domain; Region: BON; pfam04972 582744003764 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 582744003765 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 582744003766 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 582744003767 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 582744003768 DEAD-like helicases superfamily; Region: DEXDc; smart00487 582744003769 ATP binding site [chemical binding]; other site 582744003770 Mg++ binding site [ion binding]; other site 582744003771 motif III; other site 582744003772 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 582744003773 nucleotide binding region [chemical binding]; other site 582744003774 ATP-binding site [chemical binding]; other site 582744003775 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 582744003776 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 582744003777 RNA binding surface [nucleotide binding]; other site 582744003778 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 582744003779 active site 582744003780 uracil binding [chemical binding]; other site 582744003781 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 582744003782 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 582744003783 tetramer (dimer of dimers) interface [polypeptide binding]; other site 582744003784 active site 582744003785 dimer interface [polypeptide binding]; other site 582744003786 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 582744003787 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 582744003788 DAK2 domain; Region: Dak2; cl03685 582744003789 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 582744003790 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 582744003791 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 582744003792 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 582744003793 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 582744003794 dimerization interface [polypeptide binding]; other site 582744003795 domain crossover interface; other site 582744003796 redox-dependent activation switch; other site 582744003797 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 582744003798 active site 582744003799 HIGH motif; other site 582744003800 nucleotide binding site [chemical binding]; other site 582744003801 active site 582744003802 KMSKS motif; other site 582744003803 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 582744003804 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 582744003805 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 582744003806 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 582744003807 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 582744003808 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 582744003809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744003810 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744003811 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 582744003812 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 582744003813 DNA binding site [nucleotide binding] 582744003814 active site 582744003815 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 582744003816 dimerization interface [polypeptide binding]; other site 582744003817 putative DNA binding site [nucleotide binding]; other site 582744003818 putative Zn2+ binding site [ion binding]; other site 582744003819 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 582744003820 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 582744003821 putative metal binding site [ion binding]; other site 582744003822 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 582744003823 Low molecular weight phosphatase family; Region: LMWPc; cd00115 582744003824 active site 582744003825 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 582744003826 Sodium Bile acid symporter family; Region: SBF; cl17470 582744003827 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 582744003828 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 582744003829 dimer interface [polypeptide binding]; other site 582744003830 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 582744003831 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744003832 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744003833 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 582744003834 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 582744003835 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 582744003836 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 582744003837 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 582744003838 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 582744003839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744003840 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 582744003841 dimer interface [polypeptide binding]; other site 582744003842 phosphorylation site [posttranslational modification] 582744003843 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 582744003844 ATP binding site [chemical binding]; other site 582744003845 Mg2+ binding site [ion binding]; other site 582744003846 G-X-G motif; other site 582744003847 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 582744003848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744003849 active site 582744003850 phosphorylation site [posttranslational modification] 582744003851 intermolecular recognition site; other site 582744003852 dimerization interface [polypeptide binding]; other site 582744003853 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 582744003854 DNA binding site [nucleotide binding] 582744003855 Autotransporter beta-domain; Region: Autotransporter; smart00869 582744003856 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 582744003857 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 582744003858 active site 582744003859 DNA binding site [nucleotide binding] 582744003860 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 582744003861 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 582744003862 Catalytic site [active] 582744003863 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 582744003864 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 582744003865 HAMP domain; Region: HAMP; pfam00672 582744003866 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 582744003867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744003868 dimer interface [polypeptide binding]; other site 582744003869 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 582744003870 putative CheW interface [polypeptide binding]; other site 582744003871 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 582744003872 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 582744003873 PAS domain S-box; Region: sensory_box; TIGR00229 582744003874 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 582744003875 putative active site [active] 582744003876 heme pocket [chemical binding]; other site 582744003877 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744003878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003879 metal binding site [ion binding]; metal-binding site 582744003880 active site 582744003881 I-site; other site 582744003882 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 582744003883 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 582744003884 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 582744003885 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; cl17173 582744003886 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 582744003887 S-adenosylmethionine binding site [chemical binding]; other site 582744003888 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 582744003889 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 582744003890 putative active site [active] 582744003891 heme pocket [chemical binding]; other site 582744003892 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 582744003893 putative active site [active] 582744003894 heme pocket [chemical binding]; other site 582744003895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744003896 metal binding site [ion binding]; metal-binding site 582744003897 active site 582744003898 I-site; other site 582744003899 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 582744003900 Protein of unknown function (DUF779); Region: DUF779; pfam05610 582744003901 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 582744003902 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 582744003903 NAD(P) binding site [chemical binding]; other site 582744003904 catalytic residues [active] 582744003905 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 582744003906 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 582744003907 putative dimer interface [polypeptide binding]; other site 582744003908 [2Fe-2S] cluster binding site [ion binding]; other site 582744003909 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 582744003910 putative dimer interface [polypeptide binding]; other site 582744003911 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 582744003912 SLBB domain; Region: SLBB; pfam10531 582744003913 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 582744003914 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 582744003915 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 582744003916 catalytic loop [active] 582744003917 iron binding site [ion binding]; other site 582744003918 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 582744003919 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 582744003920 [4Fe-4S] binding site [ion binding]; other site 582744003921 molybdopterin cofactor binding site; other site 582744003922 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 582744003923 molybdopterin cofactor binding site; other site 582744003924 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 582744003925 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 582744003926 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 582744003927 substrate binding site; other site 582744003928 dimer interface; other site 582744003929 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 582744003930 homotrimer interaction site [polypeptide binding]; other site 582744003931 zinc binding site [ion binding]; other site 582744003932 CDP-binding sites; other site 582744003933 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 582744003934 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 582744003935 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744003936 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744003937 Outer membrane efflux protein; Region: OEP; pfam02321 582744003938 Outer membrane efflux protein; Region: OEP; pfam02321 582744003939 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 582744003940 dimer interface [polypeptide binding]; other site 582744003941 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 582744003942 metal binding site [ion binding]; metal-binding site 582744003943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 582744003944 Smr domain; Region: Smr; pfam01713 582744003945 thioredoxin reductase; Provisional; Region: PRK10262 582744003946 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 582744003947 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 582744003948 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 582744003949 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 582744003950 dimerization interface [polypeptide binding]; other site 582744003951 DPS ferroxidase diiron center [ion binding]; other site 582744003952 ion pore; other site 582744003953 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 582744003954 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 582744003955 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 582744003956 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 582744003957 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 582744003958 recombination factor protein RarA; Reviewed; Region: PRK13342 582744003959 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 582744003960 Walker A motif; other site 582744003961 ATP binding site [chemical binding]; other site 582744003962 Walker B motif; other site 582744003963 arginine finger; other site 582744003964 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 582744003965 seryl-tRNA synthetase; Provisional; Region: PRK05431 582744003966 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 582744003967 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 582744003968 dimer interface [polypeptide binding]; other site 582744003969 active site 582744003970 motif 1; other site 582744003971 motif 2; other site 582744003972 motif 3; other site 582744003973 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 582744003974 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 582744003975 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 582744003976 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 582744003977 substrate binding pocket [chemical binding]; other site 582744003978 membrane-bound complex binding site; other site 582744003979 hinge residues; other site 582744003980 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...; Region: LT_GEWL; cd00254 582744003981 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744003982 catalytic residue [active] 582744003983 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 582744003984 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 582744003985 non-specific DNA binding site [nucleotide binding]; other site 582744003986 salt bridge; other site 582744003987 sequence-specific DNA binding site [nucleotide binding]; other site 582744003988 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 582744003989 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 582744003990 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 582744003991 dimer interface [polypeptide binding]; other site 582744003992 active site 582744003993 acyl carrier protein; Provisional; Region: acpP; PRK00982 582744003994 Esterase/lipase [General function prediction only]; Region: COG1647 582744003995 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 582744003996 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 582744003997 inhibitor-cofactor binding pocket; inhibition site 582744003998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744003999 catalytic residue [active] 582744004000 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 582744004001 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 582744004002 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 582744004003 Cu(I) binding site [ion binding]; other site 582744004004 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 582744004005 UbiA prenyltransferase family; Region: UbiA; pfam01040 582744004006 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 582744004007 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 582744004008 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 582744004009 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 582744004010 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 582744004011 Subunit III/VIIa interface [polypeptide binding]; other site 582744004012 Phospholipid binding site [chemical binding]; other site 582744004013 Subunit I/III interface [polypeptide binding]; other site 582744004014 Subunit III/VIb interface [polypeptide binding]; other site 582744004015 Subunit III/VIa interface; other site 582744004016 Subunit III/Vb interface [polypeptide binding]; other site 582744004017 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 582744004018 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 582744004019 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 582744004020 Subunit I/III interface [polypeptide binding]; other site 582744004021 D-pathway; other site 582744004022 Subunit I/VIIc interface [polypeptide binding]; other site 582744004023 Subunit I/IV interface [polypeptide binding]; other site 582744004024 Subunit I/II interface [polypeptide binding]; other site 582744004025 Low-spin heme (heme a) binding site [chemical binding]; other site 582744004026 Subunit I/VIIa interface [polypeptide binding]; other site 582744004027 Subunit I/VIa interface [polypeptide binding]; other site 582744004028 Dimer interface; other site 582744004029 Putative water exit pathway; other site 582744004030 Binuclear center (heme a3/CuB) [ion binding]; other site 582744004031 K-pathway; other site 582744004032 Subunit I/Vb interface [polypeptide binding]; other site 582744004033 Putative proton exit pathway; other site 582744004034 Subunit I/VIb interface; other site 582744004035 Subunit I/VIc interface [polypeptide binding]; other site 582744004036 Electron transfer pathway; other site 582744004037 Subunit I/VIIIb interface [polypeptide binding]; other site 582744004038 Subunit I/VIIb interface [polypeptide binding]; other site 582744004039 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 582744004040 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 582744004041 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 582744004042 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 582744004043 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 582744004044 Yip1 domain; Region: Yip1; cl17815 582744004045 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 582744004046 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 582744004047 FtsX-like permease family; Region: FtsX; pfam02687 582744004048 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 582744004049 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 582744004050 Walker A/P-loop; other site 582744004051 ATP binding site [chemical binding]; other site 582744004052 Q-loop/lid; other site 582744004053 ABC transporter signature motif; other site 582744004054 Walker B; other site 582744004055 D-loop; other site 582744004056 H-loop/switch region; other site 582744004057 macrolide transporter subunit MacA; Provisional; Region: PRK11578 582744004058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744004059 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744004060 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 582744004061 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 582744004062 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744004063 Walker A/P-loop; other site 582744004064 ATP binding site [chemical binding]; other site 582744004065 Q-loop/lid; other site 582744004066 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 582744004067 ABC transporter signature motif; other site 582744004068 Walker B; other site 582744004069 D-loop; other site 582744004070 ABC transporter; Region: ABC_tran_2; pfam12848 582744004071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 582744004072 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 582744004073 dimer interface [polypeptide binding]; other site 582744004074 FMN binding site [chemical binding]; other site 582744004075 transcription elongation factor regulatory protein; Validated; Region: PRK06342 582744004076 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 582744004077 GMP synthase; Reviewed; Region: guaA; PRK00074 582744004078 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 582744004079 AMP/PPi binding site [chemical binding]; other site 582744004080 candidate oxyanion hole; other site 582744004081 catalytic triad [active] 582744004082 potential glutamine specificity residues [chemical binding]; other site 582744004083 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 582744004084 ATP Binding subdomain [chemical binding]; other site 582744004085 Ligand Binding sites [chemical binding]; other site 582744004086 Dimerization subdomain; other site 582744004087 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 582744004088 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; cl17186 582744004089 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...; Region: CBS_pair_IMPDH; cd04601 582744004090 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...; Region: IMPDH; cd00381 582744004091 active site 582744004092 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 582744004093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 582744004094 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 582744004095 putative coenzyme Q binding site [chemical binding]; other site 582744004096 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 582744004097 SmpB-tmRNA interface; other site 582744004098 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 582744004099 CheW-like domain; Region: CheW; pfam01584 582744004100 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 582744004101 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 582744004102 FeS/SAM binding site; other site 582744004103 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 582744004104 elongation factor P; Validated; Region: PRK00529 582744004105 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 582744004106 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 582744004107 RNA binding site [nucleotide binding]; other site 582744004108 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 582744004109 RNA binding site [nucleotide binding]; other site 582744004110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 582744004111 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 582744004112 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 582744004113 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 582744004114 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 582744004115 probable DNA repair protein; Region: TIGR03623 582744004116 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 582744004117 Part of AAA domain; Region: AAA_19; pfam13245 582744004118 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 582744004119 Family description; Region: UvrD_C_2; pfam13538 582744004120 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 582744004121 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 582744004122 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 582744004123 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 582744004124 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 582744004125 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 582744004126 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 582744004127 ATP binding site [chemical binding]; other site 582744004128 putative Mg++ binding site [ion binding]; other site 582744004129 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 582744004130 nucleotide binding region [chemical binding]; other site 582744004131 ATP-binding site [chemical binding]; other site 582744004132 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 582744004133 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 582744004134 protease TldD; Provisional; Region: tldD; PRK10735 582744004135 nitrilase; Region: PLN02798 582744004136 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 582744004137 putative active site [active] 582744004138 catalytic triad [active] 582744004139 dimer interface [polypeptide binding]; other site 582744004140 TIGR02099 family protein; Region: TIGR02099 582744004141 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 582744004142 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 582744004143 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 582744004144 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 582744004145 ABC transporter; Region: ABC_tran_2; pfam12848 582744004146 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 582744004147 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 582744004148 dimer interface [polypeptide binding]; other site 582744004149 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 582744004150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744004151 active site 582744004152 phosphorylation site [posttranslational modification] 582744004153 intermolecular recognition site; other site 582744004154 dimerization interface [polypeptide binding]; other site 582744004155 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 582744004156 DNA binding site [nucleotide binding] 582744004157 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744004158 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 582744004159 dimerization interface [polypeptide binding]; other site 582744004160 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 582744004161 dimer interface [polypeptide binding]; other site 582744004162 phosphorylation site [posttranslational modification] 582744004163 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 582744004164 ATP binding site [chemical binding]; other site 582744004165 Mg2+ binding site [ion binding]; other site 582744004166 G-X-G motif; other site 582744004167 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 582744004168 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 582744004169 ligand binding site [chemical binding]; other site 582744004170 flexible hinge region; other site 582744004171 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 582744004172 non-specific DNA interactions [nucleotide binding]; other site 582744004173 DNA binding site [nucleotide binding] 582744004174 sequence specific DNA binding site [nucleotide binding]; other site 582744004175 putative cAMP binding site [chemical binding]; other site 582744004176 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 582744004177 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 582744004178 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 582744004179 Sulfatase; Region: Sulfatase; pfam00884 582744004180 Helix-turn-helix domain; Region: HTH_18; pfam12833 582744004181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744004182 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 582744004183 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 582744004184 aspartate aminotransferase; Provisional; Region: PRK05764 582744004185 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 582744004186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744004187 homodimer interface [polypeptide binding]; other site 582744004188 catalytic residue [active] 582744004189 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 582744004190 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 582744004191 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 582744004192 TPR repeat; Region: TPR_11; pfam13414 582744004193 binding surface 582744004194 TPR motif; other site 582744004195 excinuclease ABC subunit B; Provisional; Region: PRK05298 582744004196 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 582744004197 ATP binding site [chemical binding]; other site 582744004198 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 582744004199 nucleotide binding region [chemical binding]; other site 582744004200 ATP-binding site [chemical binding]; other site 582744004201 Ultra-violet resistance protein B; Region: UvrB; pfam12344 582744004202 UvrB/uvrC motif; Region: UVR; pfam02151 582744004203 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 582744004204 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 582744004205 homodimer interface [polypeptide binding]; other site 582744004206 oligonucleotide binding site [chemical binding]; other site 582744004207 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 582744004208 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 582744004209 RNA binding surface [nucleotide binding]; other site 582744004210 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 582744004211 active site 582744004212 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 582744004213 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 582744004214 motif II; other site 582744004215 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 582744004216 iron-sulfur cluster [ion binding]; other site 582744004217 [2Fe-2S] cluster binding site [ion binding]; other site 582744004218 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 582744004219 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 582744004220 tandem repeat interface [polypeptide binding]; other site 582744004221 oligomer interface [polypeptide binding]; other site 582744004222 active site residues [active] 582744004223 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 582744004224 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 582744004225 active site 582744004226 dimer interface [polypeptide binding]; other site 582744004227 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 582744004228 dimer interface [polypeptide binding]; other site 582744004229 active site 582744004230 glycogen branching enzyme; Provisional; Region: PRK05402 582744004231 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 582744004232 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 582744004233 active site 582744004234 catalytic site [active] 582744004235 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 582744004236 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 582744004237 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 582744004238 ligand binding site; other site 582744004239 oligomer interface; other site 582744004240 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 582744004241 dimer interface [polypeptide binding]; other site 582744004242 N-terminal domain interface [polypeptide binding]; other site 582744004243 sulfate 1 binding site; other site 582744004244 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 582744004245 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 582744004246 putative active site [active] 582744004247 catalytic site [active] 582744004248 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 582744004249 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 582744004250 active site 582744004251 catalytic site [active] 582744004252 homodimer interface [polypeptide binding]; other site 582744004253 Lid 1; other site 582744004254 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 582744004255 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 582744004256 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 582744004257 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 582744004258 nucleotide binding site [chemical binding]; other site 582744004259 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 582744004260 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 582744004261 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744004262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744004263 metal binding site [ion binding]; metal-binding site 582744004264 active site 582744004265 I-site; other site 582744004266 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 582744004267 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 582744004268 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 582744004269 active site 582744004270 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 582744004271 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 582744004272 putative active site [active] 582744004273 YdjC motif; other site 582744004274 Mg binding site [ion binding]; other site 582744004275 putative homodimer interface [polypeptide binding]; other site 582744004276 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 582744004277 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 582744004278 Ligand binding site; other site 582744004279 Putative Catalytic site; other site 582744004280 DXD motif; other site 582744004281 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 582744004282 epoxyqueuosine reductase; Region: TIGR00276 582744004283 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 582744004284 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 582744004285 AMIN domain; Region: AMIN; pfam11741 582744004286 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 582744004287 active site 582744004288 metal binding site [ion binding]; metal-binding site 582744004289 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 582744004290 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 582744004291 Beta-Casp domain; Region: Beta-Casp; smart01027 582744004292 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 582744004293 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 582744004294 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 582744004295 ATP binding site [chemical binding]; other site 582744004296 Mg2+ binding site [ion binding]; other site 582744004297 G-X-G motif; other site 582744004298 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 582744004299 ATP binding site [chemical binding]; other site 582744004300 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 582744004301 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 582744004302 substrate binding site [chemical binding]; other site 582744004303 dimer interface [polypeptide binding]; other site 582744004304 ATP binding site [chemical binding]; other site 582744004305 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 582744004306 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 582744004307 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 582744004308 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 582744004309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744004310 homodimer interface [polypeptide binding]; other site 582744004311 catalytic residue [active] 582744004312 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 582744004313 EamA-like transporter family; Region: EamA; pfam00892 582744004314 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 582744004315 putative active site [active] 582744004316 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 582744004317 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744004318 ATP binding site [chemical binding]; other site 582744004319 Walker B motif; other site 582744004320 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 582744004321 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 582744004322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744004323 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744004324 metal binding site [ion binding]; metal-binding site 582744004325 active site 582744004326 I-site; other site 582744004327 Cache domain; Region: Cache_1; pfam02743 582744004328 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 582744004329 TPR repeat; Region: TPR_11; pfam13414 582744004330 binding surface 582744004331 TPR motif; other site 582744004332 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 582744004333 binding surface 582744004334 TPR motif; other site 582744004335 TPR repeat; Region: TPR_11; pfam13414 582744004336 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 582744004337 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 582744004338 Uncharacterized conserved protein [Function unknown]; Region: COG4121 582744004339 Methyltransferase domain; Region: Methyltransf_23; pfam13489 582744004340 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 582744004341 S-adenosylmethionine binding site [chemical binding]; other site 582744004342 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 582744004343 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; cl17173 582744004344 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 582744004345 S-adenosylmethionine binding site [chemical binding]; other site 582744004346 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 582744004347 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 582744004348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 582744004349 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 582744004350 Fatty acid desaturase; Region: FA_desaturase; pfam00487 582744004351 Di-iron ligands [ion binding]; other site 582744004352 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 582744004353 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 582744004354 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 582744004355 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 582744004356 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 582744004357 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 582744004358 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 582744004359 S-adenosylmethionine binding site [chemical binding]; other site 582744004360 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 582744004361 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 582744004362 DNA binding residues [nucleotide binding] 582744004363 B12 binding domain; Region: B12-binding_2; pfam02607 582744004364 B12 binding domain; Region: B12-binding; pfam02310 582744004365 Anti-sigma-K factor rskA; Region: RskA; pfam10099 582744004366 RNA polymerase sigma factor; Provisional; Region: PRK12514 582744004367 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744004368 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 582744004369 DNA binding residues [nucleotide binding] 582744004370 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 582744004371 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 582744004372 Trp docking motif [polypeptide binding]; other site 582744004373 active site 582744004374 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; cl00248 582744004375 substrate binding site [chemical binding]; other site 582744004376 dimerization interface [polypeptide binding]; other site 582744004377 active site 582744004378 calcium binding site [ion binding]; other site 582744004379 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 582744004380 PEP-CTERM motif; Region: VPEP; pfam07589 582744004381 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 582744004382 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 582744004383 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 582744004384 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 582744004385 Walker A/P-loop; other site 582744004386 ATP binding site [chemical binding]; other site 582744004387 Q-loop/lid; other site 582744004388 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 582744004389 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 582744004390 ABC transporter signature motif; other site 582744004391 Walker B; other site 582744004392 D-loop; other site 582744004393 H-loop/switch region; other site 582744004394 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 582744004395 FtsZ protein binding site [polypeptide binding]; other site 582744004396 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 582744004397 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 582744004398 nucleotide binding pocket [chemical binding]; other site 582744004399 K-X-D-G motif; other site 582744004400 catalytic site [active] 582744004401 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 582744004402 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 582744004403 Helix-hairpin-helix motif; Region: HHH; pfam00633 582744004404 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 582744004405 Dimer interface [polypeptide binding]; other site 582744004406 BRCT sequence motif; other site 582744004407 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 582744004408 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 582744004409 active site 582744004410 Tetratricopeptide repeat; Region: TPR_12; pfam13424 582744004411 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 582744004412 TPR motif; other site 582744004413 binding surface 582744004414 TMAO/DMSO reductase; Reviewed; Region: PRK05363 582744004415 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 582744004416 Moco binding site; other site 582744004417 metal coordination site [ion binding]; other site 582744004418 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 582744004419 Predicted membrane protein [Function unknown]; Region: COG2259 582744004420 Conserved TM helix; Region: TM_helix; pfam05552 582744004421 Conserved TM helix; Region: TM_helix; pfam05552 582744004422 hypothetical protein; Provisional; Region: PRK02237 582744004423 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 582744004424 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 582744004425 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 582744004426 putative active site [active] 582744004427 putative active site [active] 582744004428 catalytic site [active] 582744004429 catalytic site [active] 582744004430 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 582744004431 PLD-like domain; Region: PLDc_2; pfam13091 582744004432 putative active site [active] 582744004433 catalytic site [active] 582744004434 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 582744004435 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 582744004436 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 582744004437 putative catalytic site [active] 582744004438 putative metal binding site [ion binding]; other site 582744004439 putative phosphate binding site [ion binding]; other site 582744004440 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 582744004441 EF-hand domain pair; Region: EF_hand_5; pfam13499 582744004442 Ca2+ binding site [ion binding]; other site 582744004443 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 582744004444 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 582744004445 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 582744004446 NAD binding site [chemical binding]; other site 582744004447 catalytic Zn binding site [ion binding]; other site 582744004448 structural Zn binding site [ion binding]; other site 582744004449 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 582744004450 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 582744004451 inhibitor site; inhibition site 582744004452 active site 582744004453 dimer interface [polypeptide binding]; other site 582744004454 catalytic residue [active] 582744004455 short chain dehydrogenase; Provisional; Region: PRK06179 582744004456 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 582744004457 NADP binding site [chemical binding]; other site 582744004458 active site 582744004459 steroid binding site; other site 582744004460 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744004461 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744004462 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 582744004463 dimerization interface [polypeptide binding]; other site 582744004464 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 582744004465 short chain dehydrogenase; Provisional; Region: PRK06701 582744004466 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 582744004467 NAD binding site [chemical binding]; other site 582744004468 metal binding site [ion binding]; metal-binding site 582744004469 active site 582744004470 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744004471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744004472 active site 582744004473 phosphorylation site [posttranslational modification] 582744004474 intermolecular recognition site; other site 582744004475 dimerization interface [polypeptide binding]; other site 582744004476 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 582744004477 DNA binding residues [nucleotide binding] 582744004478 dimerization interface [polypeptide binding]; other site 582744004479 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 582744004480 YceI-like domain; Region: YceI; pfam04264 582744004481 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 582744004482 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 582744004483 active site 582744004484 Zn binding site [ion binding]; other site 582744004485 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 582744004486 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 582744004487 metal-binding site [ion binding] 582744004488 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 582744004489 Soluble P-type ATPase [General function prediction only]; Region: COG4087 582744004490 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 582744004491 DNA-binding site [nucleotide binding]; DNA binding site 582744004492 RNA-binding motif; other site 582744004493 CsbD-like; Region: CsbD; cl17424 582744004494 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744004495 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 582744004496 DNA binding residues [nucleotide binding] 582744004497 dimerization interface [polypeptide binding]; other site 582744004498 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 582744004499 Na binding site [ion binding]; other site 582744004500 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 582744004501 Peptidase family M23; Region: Peptidase_M23; pfam01551 582744004502 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 582744004503 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 582744004504 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 582744004505 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 582744004506 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 582744004507 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744004508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744004509 active site 582744004510 phosphorylation site [posttranslational modification] 582744004511 intermolecular recognition site; other site 582744004512 dimerization interface [polypeptide binding]; other site 582744004513 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 582744004514 DNA binding residues [nucleotide binding] 582744004515 dimerization interface [polypeptide binding]; other site 582744004516 ferredoxin-NADP reductase; Provisional; Region: PRK10926 582744004517 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 582744004518 FAD binding pocket [chemical binding]; other site 582744004519 FAD binding motif [chemical binding]; other site 582744004520 phosphate binding motif [ion binding]; other site 582744004521 beta-alpha-beta structure motif; other site 582744004522 NAD binding pocket [chemical binding]; other site 582744004523 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 582744004524 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 582744004525 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 582744004526 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 582744004527 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 582744004528 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 582744004529 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 582744004530 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 582744004531 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 582744004532 catalytic loop [active] 582744004533 iron binding site [ion binding]; other site 582744004534 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 582744004535 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 582744004536 Ligand binding site; other site 582744004537 metal-binding site 582744004538 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 582744004539 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 582744004540 XdhC Rossmann domain; Region: XdhC_C; pfam13478 582744004541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744004542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744004543 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 582744004544 putative effector binding pocket; other site 582744004545 dimerization interface [polypeptide binding]; other site 582744004546 putative hydrolase; Provisional; Region: PRK02113 582744004547 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 582744004548 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 582744004549 active site 582744004550 PilZ domain; Region: PilZ; cl01260 582744004551 DNA polymerase III subunit delta'; Validated; Region: PRK06964 582744004552 DNA polymerase III subunit delta'; Validated; Region: PRK08485 582744004553 thymidylate kinase; Validated; Region: tmk; PRK00698 582744004554 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 582744004555 TMP-binding site; other site 582744004556 ATP-binding site [chemical binding]; other site 582744004557 YceG-like family; Region: YceG; pfam02618 582744004558 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 582744004559 dimerization interface [polypeptide binding]; other site 582744004560 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 582744004561 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 582744004562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744004563 catalytic residue [active] 582744004564 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 582744004565 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 582744004566 dimer interface [polypeptide binding]; other site 582744004567 active site 582744004568 acyl carrier protein; Provisional; Region: acpP; PRK00982 582744004569 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 582744004570 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 582744004571 NAD(P) binding site [chemical binding]; other site 582744004572 homotetramer interface [polypeptide binding]; other site 582744004573 homodimer interface [polypeptide binding]; other site 582744004574 active site 582744004575 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 582744004576 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 582744004577 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 582744004578 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 582744004579 dimer interface [polypeptide binding]; other site 582744004580 active site 582744004581 CoA binding pocket [chemical binding]; other site 582744004582 putative phosphate acyltransferase; Provisional; Region: PRK05331 582744004583 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 582744004584 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 582744004585 pyruvate carboxylase subunit A; Validated; Region: PRK07178 582744004586 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 582744004587 ATP-grasp domain; Region: ATP-grasp_4; cl17255 582744004588 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 582744004589 pyruvate carboxylase subunit B; Validated; Region: PRK09282 582744004590 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 582744004591 active site 582744004592 catalytic residues [active] 582744004593 metal binding site [ion binding]; metal-binding site 582744004594 homodimer binding site [polypeptide binding]; other site 582744004595 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 582744004596 carboxyltransferase (CT) interaction site; other site 582744004597 biotinylation site [posttranslational modification]; other site 582744004598 Maf-like protein; Region: Maf; pfam02545 582744004599 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 582744004600 active site 582744004601 dimer interface [polypeptide binding]; other site 582744004602 Uncharacterized conserved protein [Function unknown]; Region: COG5316 582744004603 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 582744004604 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 582744004605 putative SAM binding site [chemical binding]; other site 582744004606 homodimer interface [polypeptide binding]; other site 582744004607 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 582744004608 RNA/DNA hybrid binding site [nucleotide binding]; other site 582744004609 active site 582744004610 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 582744004611 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 582744004612 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 582744004613 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 582744004614 active site 582744004615 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 582744004616 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 582744004617 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 582744004618 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 582744004619 trimer interface [polypeptide binding]; other site 582744004620 active site 582744004621 UDP-GlcNAc binding site [chemical binding]; other site 582744004622 lipid binding site [chemical binding]; lipid-binding site 582744004623 periplasmic chaperone; Provisional; Region: PRK10780 582744004624 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 582744004625 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 582744004626 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 582744004627 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 582744004628 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 582744004629 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 582744004630 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 582744004631 Surface antigen; Region: Bac_surface_Ag; pfam01103 582744004632 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 582744004633 zinc metallopeptidase RseP; Provisional; Region: PRK10779 582744004634 active site 582744004635 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 582744004636 protein binding site [polypeptide binding]; other site 582744004637 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 582744004638 protein binding site [polypeptide binding]; other site 582744004639 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 582744004640 putative substrate binding region [chemical binding]; other site 582744004641 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 582744004642 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 582744004643 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 582744004644 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 582744004645 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 582744004646 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 582744004647 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 582744004648 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 582744004649 catalytic residue [active] 582744004650 putative FPP diphosphate binding site; other site 582744004651 putative FPP binding hydrophobic cleft; other site 582744004652 dimer interface [polypeptide binding]; other site 582744004653 putative IPP diphosphate binding site; other site 582744004654 ribosome recycling factor; Reviewed; Region: frr; PRK00083 582744004655 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...; Region: RRF; cd00520 582744004656 hinge region; other site 582744004657 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 582744004658 putative nucleotide binding site [chemical binding]; other site 582744004659 uridine monophosphate binding site [chemical binding]; other site 582744004660 homohexameric interface [polypeptide binding]; other site 582744004661 elongation factor Ts; Provisional; Region: tsf; PRK09377 582744004662 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 582744004663 Elongation factor TS; Region: EF_TS; pfam00889 582744004664 Elongation factor TS; Region: EF_TS; pfam00889 582744004665 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 582744004666 rRNA interaction site [nucleotide binding]; other site 582744004667 S8 interaction site; other site 582744004668 putative laminin-1 binding site; other site 582744004669 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 582744004670 active site 582744004671 PII uridylyl-transferase; Provisional; Region: PRK03059 582744004672 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 582744004673 metal binding triad; other site 582744004674 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 582744004675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 582744004676 Zn2+ binding site [ion binding]; other site 582744004677 Mg2+ binding site [ion binding]; other site 582744004678 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 582744004679 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 582744004680 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 582744004681 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 582744004682 active site 582744004683 DNA binding site [nucleotide binding] 582744004684 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 582744004685 classical (c) SDRs; Region: SDR_c; cd05233 582744004686 NAD(P) binding site [chemical binding]; other site 582744004687 active site 582744004688 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 582744004689 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 582744004690 active site 582744004691 catalytic residues [active] 582744004692 metal binding site [ion binding]; metal-binding site 582744004693 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 582744004694 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 582744004695 active site lid residues [active] 582744004696 substrate binding pocket [chemical binding]; other site 582744004697 catalytic residues [active] 582744004698 substrate-Mg2+ binding site; other site 582744004699 aspartate-rich region 1; other site 582744004700 aspartate-rich region 2; other site 582744004701 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 582744004702 catalytic residues [active] 582744004703 substrate binding pocket [chemical binding]; other site 582744004704 substrate-Mg2+ binding site; other site 582744004705 aspartate-rich region 1; other site 582744004706 aspartate-rich region 2; other site 582744004707 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 582744004708 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 582744004709 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 582744004710 Membrane protein of unknown function; Region: DUF360; pfam04020 582744004711 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 582744004712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 582744004713 NAD(P) binding site [chemical binding]; other site 582744004714 active site 582744004715 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 582744004716 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 582744004717 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 582744004718 motif II; other site 582744004719 DNA repair protein RadA; Provisional; Region: PRK11823 582744004720 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 582744004721 Walker A motif/ATP binding site; other site 582744004722 ATP binding site [chemical binding]; other site 582744004723 Walker B motif; other site 582744004724 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 582744004725 alanine racemase; Reviewed; Region: alr; PRK00053 582744004726 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 582744004727 active site 582744004728 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 582744004729 substrate binding site [chemical binding]; other site 582744004730 catalytic residues [active] 582744004731 dimer interface [polypeptide binding]; other site 582744004732 replicative DNA helicase; Region: DnaB; TIGR00665 582744004733 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 582744004734 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 582744004735 Walker A motif; other site 582744004736 ATP binding site [chemical binding]; other site 582744004737 Walker B motif; other site 582744004738 DNA binding loops [nucleotide binding] 582744004739 cystathionine beta-lyase; Provisional; Region: PRK07050 582744004740 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 582744004741 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744004742 catalytic residue [active] 582744004743 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 582744004744 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 582744004745 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 582744004746 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 582744004747 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 582744004748 generic binding surface II; other site 582744004749 generic binding surface I; other site 582744004750 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 582744004751 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 582744004752 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 582744004753 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 582744004754 glycogen synthase; Provisional; Region: glgA; PRK00654 582744004755 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 582744004756 ADP-binding pocket [chemical binding]; other site 582744004757 homodimer interface [polypeptide binding]; other site 582744004758 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 582744004759 catalytic site [active] 582744004760 putative active site [active] 582744004761 putative substrate binding site [chemical binding]; other site 582744004762 dimer interface [polypeptide binding]; other site 582744004763 Peptidase family M48; Region: Peptidase_M48; pfam01435 582744004764 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 582744004765 GTPase RsgA; Reviewed; Region: PRK00098 582744004766 RNA binding site [nucleotide binding]; other site 582744004767 homodimer interface [polypeptide binding]; other site 582744004768 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 582744004769 GTPase/Zn-binding domain interface [polypeptide binding]; other site 582744004770 GTP/Mg2+ binding site [chemical binding]; other site 582744004771 G4 box; other site 582744004772 G5 box; other site 582744004773 G1 box; other site 582744004774 Switch I region; other site 582744004775 G2 box; other site 582744004776 G3 box; other site 582744004777 Switch II region; other site 582744004778 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 582744004779 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 582744004780 putative active site [active] 582744004781 Zn binding site [ion binding]; other site 582744004782 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 582744004783 active site 582744004784 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 582744004785 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 582744004786 NADP binding site [chemical binding]; other site 582744004787 active site 582744004788 putative substrate binding site [chemical binding]; other site 582744004789 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 582744004790 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 582744004791 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 582744004792 substrate binding site; other site 582744004793 tetramer interface; other site 582744004794 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 582744004795 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 582744004796 NAD binding site [chemical binding]; other site 582744004797 substrate binding site [chemical binding]; other site 582744004798 homodimer interface [polypeptide binding]; other site 582744004799 active site 582744004800 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 582744004801 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 582744004802 active site 582744004803 catalytic site [active] 582744004804 substrate binding site [chemical binding]; other site 582744004805 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 582744004806 RNA/DNA hybrid binding site [nucleotide binding]; other site 582744004807 active site 582744004808 Methyltransferase domain; Region: Methyltransf_11; pfam08241 582744004809 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 582744004810 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...; Region: LT_GEWL; cd00254 582744004811 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744004812 catalytic residue [active] 582744004813 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 582744004814 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 582744004815 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 582744004816 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 582744004817 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 582744004818 peptide binding site [polypeptide binding]; other site 582744004819 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 582744004820 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 582744004821 dimer interface [polypeptide binding]; other site 582744004822 conserved gate region; other site 582744004823 putative PBP binding loops; other site 582744004824 ABC-ATPase subunit interface; other site 582744004825 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 582744004826 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 582744004827 dimer interface [polypeptide binding]; other site 582744004828 conserved gate region; other site 582744004829 putative PBP binding loops; other site 582744004830 ABC-ATPase subunit interface; other site 582744004831 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 582744004832 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 582744004833 NAD binding site [chemical binding]; other site 582744004834 homotetramer interface [polypeptide binding]; other site 582744004835 homodimer interface [polypeptide binding]; other site 582744004836 substrate binding site [chemical binding]; other site 582744004837 active site 582744004838 periplasmic folding chaperone; Provisional; Region: PRK10788 582744004839 SurA N-terminal domain; Region: SurA_N_3; cl07813 582744004840 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 582744004841 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 582744004842 IHF dimer interface [polypeptide binding]; other site 582744004843 IHF - DNA interface [nucleotide binding]; other site 582744004844 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 582744004845 Found in ATP-dependent protease La (LON); Region: LON; smart00464 582744004846 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 582744004847 Walker A motif; other site 582744004848 ATP binding site [chemical binding]; other site 582744004849 Walker B motif; other site 582744004850 arginine finger; other site 582744004851 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 582744004852 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 582744004853 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 582744004854 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 582744004855 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 582744004856 Walker A motif; other site 582744004857 ATP binding site [chemical binding]; other site 582744004858 Walker B motif; other site 582744004859 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 582744004860 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 582744004861 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 582744004862 oligomer interface [polypeptide binding]; other site 582744004863 active site residues [active] 582744004864 trigger factor; Provisional; Region: tig; PRK01490 582744004865 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 582744004866 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 582744004867 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 582744004868 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 582744004869 active site 582744004870 DNA binding site [nucleotide binding] 582744004871 Int/Topo IB signature motif; other site 582744004872 cell division protein DedD; Provisional; Region: PRK11633 582744004873 putative transposase OrfB; Reviewed; Region: PHA02517 582744004874 HTH-like domain; Region: HTH_21; pfam13276 582744004875 Integrase core domain; Region: rve; pfam00665 582744004876 Integrase core domain; Region: rve_2; pfam13333 582744004877 Transposase; Region: HTH_Tnp_1; pfam01527 582744004878 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 582744004879 hypothetical protein; Region: PHA01733 582744004880 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 582744004881 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 582744004882 non-specific DNA binding site [nucleotide binding]; other site 582744004883 salt bridge; other site 582744004884 sequence-specific DNA binding site [nucleotide binding]; other site 582744004885 Prophage antirepressor [Transcription]; Region: COG3617 582744004886 BRO family, N-terminal domain; Region: Bro-N; smart01040 582744004887 multiple promoter invertase; Provisional; Region: mpi; PRK13413 582744004888 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 582744004889 catalytic residues [active] 582744004890 catalytic nucleophile [active] 582744004891 Presynaptic Site I dimer interface [polypeptide binding]; other site 582744004892 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 582744004893 Synaptic Flat tetramer interface [polypeptide binding]; other site 582744004894 Synaptic Site I dimer interface [polypeptide binding]; other site 582744004895 DNA binding site [nucleotide binding] 582744004896 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 582744004897 DNA-binding interface [nucleotide binding]; DNA binding site 582744004898 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 582744004899 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 582744004900 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 582744004901 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 582744004902 active site 582744004903 DNA binding site [nucleotide binding] 582744004904 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 582744004905 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 582744004906 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 582744004907 Catalytic site [active] 582744004908 Outer membrane efflux protein; Region: OEP; pfam02321 582744004909 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 582744004910 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 582744004911 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 582744004912 PAS domain; Region: PAS_8; pfam13188 582744004913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744004914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744004915 metal binding site [ion binding]; metal-binding site 582744004916 active site 582744004917 I-site; other site 582744004918 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 582744004919 aromatic arch; other site 582744004920 DCoH dimer interaction site [polypeptide binding]; other site 582744004921 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 582744004922 DCoH tetramer interaction site [polypeptide binding]; other site 582744004923 substrate binding site [chemical binding]; other site 582744004924 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 582744004925 substrate binding site [chemical binding]; other site 582744004926 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 582744004927 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 582744004928 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 582744004929 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: COG1548; cl00668 582744004930 ATP-grasp domain; Region: ATP-grasp_4; cl17255 582744004931 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 582744004932 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 582744004933 active site 582744004934 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 582744004935 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 582744004936 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 582744004937 tetramer interface [polypeptide binding]; other site 582744004938 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 582744004939 active site 582744004940 transaldolase-like protein; Provisional; Region: PTZ00411 582744004941 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 582744004942 active site 582744004943 dimer interface [polypeptide binding]; other site 582744004944 catalytic residue [active] 582744004945 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 582744004946 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 582744004947 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 582744004948 ATP-grasp domain; Region: ATP-grasp_4; cl17255 582744004949 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 582744004950 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 582744004951 trimer interface I [polypeptide binding]; other site 582744004952 putative substrate binding pocket [chemical binding]; other site 582744004953 trimer interface II [polypeptide binding]; other site 582744004954 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 582744004955 ATP-grasp domain; Region: ATP-grasp_4; cl17255 582744004956 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 582744004957 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 582744004958 NAD(P) binding pocket [chemical binding]; other site 582744004959 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 582744004960 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 582744004961 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 582744004962 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 582744004963 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 582744004964 putative [4Fe-4S] binding site [ion binding]; other site 582744004965 putative molybdopterin cofactor binding site [chemical binding]; other site 582744004966 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 582744004967 Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in...; Region: FMDH_A; cd01304 582744004968 active site 582744004969 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 582744004970 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 582744004971 FTR, proximal lobe; Region: FTR_C; pfam02741 582744004972 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 582744004973 domain_subunit interface; other site 582744004974 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 582744004975 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 582744004976 ligand binding site [chemical binding]; other site 582744004977 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 582744004978 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 582744004979 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 582744004980 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 582744004981 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 582744004982 Domain of unknown function DUF302; Region: DUF302; cl01364 582744004983 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 582744004984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744004985 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 582744004986 substrate binding site [chemical binding]; other site 582744004987 dimerization interface [polypeptide binding]; other site 582744004988 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 582744004989 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 582744004990 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 582744004991 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 582744004992 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 582744004993 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 582744004994 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 582744004995 Active Sites [active] 582744004996 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 582744004997 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 582744004998 Active Sites [active] 582744004999 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 582744005000 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 582744005001 CysD dimerization site [polypeptide binding]; other site 582744005002 G1 box; other site 582744005003 putative GEF interaction site [polypeptide binding]; other site 582744005004 GTP/Mg2+ binding site [chemical binding]; other site 582744005005 Switch I region; other site 582744005006 G2 box; other site 582744005007 G3 box; other site 582744005008 Switch II region; other site 582744005009 G4 box; other site 582744005010 G5 box; other site 582744005011 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 582744005012 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 582744005013 Ferredoxin [Energy production and conversion]; Region: COG1146 582744005014 4Fe-4S binding domain; Region: Fer4; cl02805 582744005015 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 582744005016 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 582744005017 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 582744005018 ATP binding site [chemical binding]; other site 582744005019 putative Mg++ binding site [ion binding]; other site 582744005020 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 582744005021 nucleotide binding region [chemical binding]; other site 582744005022 ATP-binding site [chemical binding]; other site 582744005023 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 582744005024 HRDC domain; Region: HRDC; pfam00570 582744005025 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744005026 putative substrate translocation pore; other site 582744005027 Major Facilitator Superfamily; Region: MFS_1; pfam07690 582744005028 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 582744005029 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 582744005030 FeS/SAM binding site; other site 582744005031 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 582744005032 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 582744005033 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 582744005034 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 582744005035 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 582744005036 coenzyme PQQ biosynthesis protein A; Provisional; Region: PRK14763 582744005037 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 582744005038 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 582744005039 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 582744005040 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 582744005041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744005042 homodimer interface [polypeptide binding]; other site 582744005043 catalytic residue [active] 582744005044 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744005045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744005046 metal binding site [ion binding]; metal-binding site 582744005047 active site 582744005048 I-site; other site 582744005049 Chorismate mutase type II; Region: CM_2; smart00830 582744005050 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 582744005051 Prephenate dehydratase; Region: PDT; pfam00800 582744005052 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 582744005053 putative L-Phe binding site [chemical binding]; other site 582744005054 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 582744005055 homodimer interface [polypeptide binding]; other site 582744005056 substrate-cofactor binding pocket; other site 582744005057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744005058 catalytic residue [active] 582744005059 DNA gyrase subunit A; Validated; Region: PRK05560 582744005060 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...; Region: TOP4c; cd00187 582744005061 CAP-like domain; other site 582744005062 active site 582744005063 primary dimer interface [polypeptide binding]; other site 582744005064 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 582744005065 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 582744005066 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 582744005067 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 582744005068 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 582744005069 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 582744005070 peroxidase; Provisional; Region: PRK15000 582744005071 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 582744005072 dimer interface [polypeptide binding]; other site 582744005073 decamer (pentamer of dimers) interface [polypeptide binding]; other site 582744005074 catalytic triad [active] 582744005075 peroxidatic and resolving cysteines [active] 582744005076 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 582744005077 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 582744005078 homodimer interface [polypeptide binding]; other site 582744005079 substrate-cofactor binding pocket; other site 582744005080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744005081 catalytic residue [active] 582744005082 amidophosphoribosyltransferase; Provisional; Region: PRK09246 582744005083 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 582744005084 active site 582744005085 tetramer interface [polypeptide binding]; other site 582744005086 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 582744005087 active site 582744005088 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 582744005089 Colicin V production protein; Region: Colicin_V; pfam02674 582744005090 Sporulation related domain; Region: SPOR; pfam05036 582744005091 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 582744005092 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 582744005093 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 582744005094 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 582744005095 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 582744005096 substrate binding site [chemical binding]; other site 582744005097 active site 582744005098 catalytic residues [active] 582744005099 heterodimer interface [polypeptide binding]; other site 582744005100 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 582744005101 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 582744005102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744005103 catalytic residue [active] 582744005104 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...; Region: PRAI; cd00405 582744005105 active site 582744005106 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 582744005107 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 582744005108 dimerization interface 3.5A [polypeptide binding]; other site 582744005109 active site 582744005110 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 582744005111 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 582744005112 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 582744005113 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 582744005114 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 582744005115 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 582744005116 tartrate dehydrogenase; Region: TTC; TIGR02089 582744005117 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 582744005118 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 582744005119 substrate binding site [chemical binding]; other site 582744005120 Entericidin EcnA/B family; Region: Entericidin; pfam08085 582744005121 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 582744005122 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 582744005123 substrate binding site [chemical binding]; other site 582744005124 ligand binding site [chemical binding]; other site 582744005125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 582744005126 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 582744005127 DinB family; Region: DinB; cl17821 582744005128 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 582744005129 argininosuccinate synthase; Provisional; Region: PRK13820 582744005130 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 582744005131 ANP binding site [chemical binding]; other site 582744005132 Substrate Binding Site II [chemical binding]; other site 582744005133 Substrate Binding Site I [chemical binding]; other site 582744005134 ornithine carbamoyltransferase; Provisional; Region: PRK00779 582744005135 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 582744005136 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 582744005137 acetylornithine aminotransferase; Provisional; Region: PRK02627 582744005138 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 582744005139 inhibitor-cofactor binding pocket; inhibition site 582744005140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744005141 catalytic residue [active] 582744005142 Protein of unknown function (DUF989); Region: DUF989; pfam06181 582744005143 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 582744005144 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 582744005145 [2Fe-2S] cluster binding site [ion binding]; other site 582744005146 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 582744005147 alpha subunit interface [polypeptide binding]; other site 582744005148 active site 582744005149 substrate binding site [chemical binding]; other site 582744005150 Fe binding site [ion binding]; other site 582744005151 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 582744005152 EamA-like transporter family; Region: EamA; pfam00892 582744005153 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744005154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744005155 active site 582744005156 phosphorylation site [posttranslational modification] 582744005157 intermolecular recognition site; other site 582744005158 dimerization interface [polypeptide binding]; other site 582744005159 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 582744005160 DNA binding residues [nucleotide binding] 582744005161 dimerization interface [polypeptide binding]; other site 582744005162 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 582744005163 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 582744005164 dimerization interface [polypeptide binding]; other site 582744005165 PAS fold; Region: PAS; pfam00989 582744005166 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 582744005167 putative active site [active] 582744005168 heme pocket [chemical binding]; other site 582744005169 Histidine kinase; Region: HisKA_3; pfam07730 582744005170 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 582744005171 ATP binding site [chemical binding]; other site 582744005172 Mg2+ binding site [ion binding]; other site 582744005173 G-X-G motif; other site 582744005174 Cache domain; Region: Cache_1; pfam02743 582744005175 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 582744005176 dimerization interface [polypeptide binding]; other site 582744005177 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 582744005178 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744005179 dimer interface [polypeptide binding]; other site 582744005180 putative CheW interface [polypeptide binding]; other site 582744005181 HPP family; Region: HPP; pfam04982 582744005182 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 582744005183 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 582744005184 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 582744005185 metal binding triad; other site 582744005186 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 582744005187 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 582744005188 metal binding triad; other site 582744005189 acetyl-CoA synthetase; Provisional; Region: PRK00174 582744005190 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 582744005191 active site 582744005192 CoA binding site [chemical binding]; other site 582744005193 acyl-activating enzyme (AAE) consensus motif; other site 582744005194 AMP binding site [chemical binding]; other site 582744005195 acetate binding site [chemical binding]; other site 582744005196 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 582744005197 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 582744005198 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 582744005199 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 582744005200 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 582744005201 N-terminal plug; other site 582744005202 ligand-binding site [chemical binding]; other site 582744005203 fec operon regulator FecR; Reviewed; Region: PRK09774 582744005204 FecR protein; Region: FecR; pfam04773 582744005205 RNA polymerase sigma factor; Provisional; Region: PRK12528 582744005206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744005207 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 582744005208 DNA binding residues [nucleotide binding] 582744005209 Putative phosphatase (DUF442); Region: DUF442; cl17385 582744005210 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 582744005211 dimerization interface [polypeptide binding]; other site 582744005212 putative DNA binding site [nucleotide binding]; other site 582744005213 putative Zn2+ binding site [ion binding]; other site 582744005214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 582744005215 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 582744005216 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 582744005217 G1 box; other site 582744005218 putative GEF interaction site [polypeptide binding]; other site 582744005219 GTP/Mg2+ binding site [chemical binding]; other site 582744005220 Switch I region; other site 582744005221 G2 box; other site 582744005222 G3 box; other site 582744005223 Switch II region; other site 582744005224 G4 box; other site 582744005225 G5 box; other site 582744005226 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 582744005227 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 582744005228 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 582744005229 ligand binding site [chemical binding]; other site 582744005230 flexible hinge region; other site 582744005231 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 582744005232 putative switch regulator; other site 582744005233 non-specific DNA interactions [nucleotide binding]; other site 582744005234 DNA binding site [nucleotide binding] 582744005235 sequence specific DNA binding site [nucleotide binding]; other site 582744005236 putative cAMP binding site [chemical binding]; other site 582744005237 Response regulator receiver domain; Region: Response_reg; pfam00072 582744005238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744005239 active site 582744005240 phosphorylation site [posttranslational modification] 582744005241 intermolecular recognition site; other site 582744005242 dimerization interface [polypeptide binding]; other site 582744005243 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 582744005244 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 582744005245 Phytochrome region; Region: PHY; pfam00360 582744005246 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 582744005247 dimer interface [polypeptide binding]; other site 582744005248 phosphorylation site [posttranslational modification] 582744005249 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 582744005250 ATP binding site [chemical binding]; other site 582744005251 Mg2+ binding site [ion binding]; other site 582744005252 G-X-G motif; other site 582744005253 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 582744005254 heme binding pocket [chemical binding]; other site 582744005255 heme ligand [chemical binding]; other site 582744005256 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; cd00312 582744005257 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 582744005258 substrate binding pocket [chemical binding]; other site 582744005259 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 582744005260 CHASE domain; Region: CHASE; pfam03924 582744005261 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 582744005262 putative active site [active] 582744005263 PAS fold; Region: PAS_3; pfam08447 582744005264 heme pocket [chemical binding]; other site 582744005265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744005266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744005267 metal binding site [ion binding]; metal-binding site 582744005268 active site 582744005269 I-site; other site 582744005270 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 582744005271 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 582744005272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 582744005273 DNA-binding site [nucleotide binding]; DNA binding site 582744005274 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 582744005275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744005276 homodimer interface [polypeptide binding]; other site 582744005277 catalytic residue [active] 582744005278 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; cl17220 582744005279 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 582744005280 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 582744005281 putative molybdopterin cofactor binding site [chemical binding]; other site 582744005282 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 582744005283 putative molybdopterin cofactor binding site; other site 582744005284 serine/threonine protein kinase; Provisional; Region: PRK11768 582744005285 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 582744005286 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 582744005287 catalytic residues [active] 582744005288 dimer interface [polypeptide binding]; other site 582744005289 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 582744005290 Acyltransferase family; Region: Acyl_transf_3; pfam01757 582744005291 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 582744005292 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 582744005293 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 582744005294 Catalytic site [active] 582744005295 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 582744005296 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 582744005297 active site 582744005298 DNA binding site [nucleotide binding] 582744005299 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 582744005300 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 582744005301 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...; Region: LT_GEWL; cd00254 582744005302 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744005303 catalytic residue [active] 582744005304 Phage-related minor tail protein [Function unknown]; Region: COG5281 582744005305 tape measure domain; Region: tape_meas_nterm; TIGR02675 582744005306 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 582744005307 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 582744005308 HeH/LEM domain; Region: HeH; pfam12949 582744005309 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 582744005310 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 582744005311 Phage terminase large subunit; Region: Terminase_3; cl12054 582744005312 Terminase-like family; Region: Terminase_6; pfam03237 582744005313 Homeodomain-like domain; Region: HTH_23; pfam13384 582744005314 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 582744005315 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 582744005316 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 582744005317 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 582744005318 non-specific DNA binding site [nucleotide binding]; other site 582744005319 salt bridge; other site 582744005320 sequence-specific DNA binding site [nucleotide binding]; other site 582744005321 Predicted transcriptional regulator [Transcription]; Region: COG2932 582744005322 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 582744005323 Catalytic site [active] 582744005324 hypothetical protein; Provisional; Region: PRK10281 582744005325 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 582744005326 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 582744005327 DNA methylase; Region: N6_N4_Mtase; cl17433 582744005328 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 582744005329 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 582744005330 cofactor binding site; other site 582744005331 DNA binding site [nucleotide binding] 582744005332 substrate interaction site [chemical binding]; other site 582744005333 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 582744005334 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 582744005335 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 582744005336 HSP70 interaction site [polypeptide binding]; other site 582744005337 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 582744005338 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 582744005339 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 582744005340 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 582744005341 active site 582744005342 Int/Topo IB signature motif; other site 582744005343 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 582744005344 cyclase homology domain; Region: CHD; cd07302 582744005345 nucleotidyl binding site; other site 582744005346 metal binding site [ion binding]; metal-binding site 582744005347 dimer interface [polypeptide binding]; other site 582744005348 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 582744005349 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 582744005350 Walker A motif; other site 582744005351 ATP binding site [chemical binding]; other site 582744005352 DNA polymerase III subunit delta'; Validated; Region: PRK08485 582744005353 Walker B motif; other site 582744005354 arginine finger; other site 582744005355 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 582744005356 hypothetical protein; Validated; Region: PRK00153 582744005357 recombination protein RecR; Reviewed; Region: recR; PRK00076 582744005358 RecR protein; Region: RecR; pfam02132 582744005359 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 582744005360 putative active site [active] 582744005361 putative metal-binding site [ion binding]; other site 582744005362 tetramer interface [polypeptide binding]; other site 582744005363 phosphoglycolate phosphatase; Provisional; Region: PRK13222 582744005364 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 582744005365 motif II; other site 582744005366 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 582744005367 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 582744005368 S-adenosylmethionine binding site [chemical binding]; other site 582744005369 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 582744005370 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 582744005371 active site 582744005372 putative substrate binding pocket [chemical binding]; other site 582744005373 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 582744005374 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 582744005375 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 582744005376 ligand binding site [chemical binding]; other site 582744005377 hypothetical protein; Provisional; Region: PRK02227 582744005378 Protein of unknown function (DUF447); Region: DUF447; pfam04289 582744005379 dihydropteroate synthase-related protein; Region: TIGR00284 582744005380 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 582744005381 substrate binding pocket [chemical binding]; other site 582744005382 inhibitor binding site; inhibition site 582744005383 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 582744005384 Flavoprotein; Region: Flavoprotein; pfam02441 582744005385 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 582744005386 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 582744005387 GDP-binding site [chemical binding]; other site 582744005388 ACT binding site; other site 582744005389 IMP binding site; other site 582744005390 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 582744005391 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...; Region: HisRS-like_core; cd00773 582744005392 dimer interface [polypeptide binding]; other site 582744005393 motif 1; other site 582744005394 active site 582744005395 motif 2; other site 582744005396 motif 3; other site 582744005397 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 582744005398 HflC protein; Region: hflC; TIGR01932 582744005399 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 582744005400 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 582744005401 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 582744005402 HflK protein; Region: hflK; TIGR01933 582744005403 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 582744005404 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 582744005405 HflX GTPase family; Region: HflX; cd01878 582744005406 G1 box; other site 582744005407 GTP/Mg2+ binding site [chemical binding]; other site 582744005408 Switch I region; other site 582744005409 G2 box; other site 582744005410 G3 box; other site 582744005411 Switch II region; other site 582744005412 G4 box; other site 582744005413 G5 box; other site 582744005414 bacterial Hfq-like; Region: Hfq; cd01716 582744005415 hexamer interface [polypeptide binding]; other site 582744005416 Sm1 motif; other site 582744005417 RNA binding site [nucleotide binding]; other site 582744005418 Sm2 motif; other site 582744005419 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 582744005420 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 582744005421 active site 582744005422 HIGH motif; other site 582744005423 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 582744005424 active site 582744005425 KMSKS motif; other site 582744005426 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 582744005427 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 582744005428 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 582744005429 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744005430 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744005431 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 582744005432 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744005433 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 582744005434 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 582744005435 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 582744005436 putative active site [active] 582744005437 heme pocket [chemical binding]; other site 582744005438 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 582744005439 putative active site [active] 582744005440 heme pocket [chemical binding]; other site 582744005441 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744005442 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744005443 metal binding site [ion binding]; metal-binding site 582744005444 active site 582744005445 I-site; other site 582744005446 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 582744005447 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 582744005448 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 582744005449 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 582744005450 FeS/SAM binding site; other site 582744005451 TRAM domain; Region: TRAM; cl01282 582744005452 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 582744005453 ZIP Zinc transporter; Region: Zip; pfam02535 582744005454 PEP-CTERM motif; Region: VPEP; pfam07589 582744005455 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 582744005456 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 582744005457 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 582744005458 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 582744005459 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 582744005460 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 582744005461 RNA binding surface [nucleotide binding]; other site 582744005462 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 582744005463 active site 582744005464 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 582744005465 GTP-binding protein Der; Reviewed; Region: PRK00093 582744005466 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 582744005467 G1 box; other site 582744005468 GTP/Mg2+ binding site [chemical binding]; other site 582744005469 Switch I region; other site 582744005470 G2 box; other site 582744005471 Switch II region; other site 582744005472 G3 box; other site 582744005473 G4 box; other site 582744005474 G5 box; other site 582744005475 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 582744005476 G1 box; other site 582744005477 GTP/Mg2+ binding site [chemical binding]; other site 582744005478 Switch I region; other site 582744005479 G2 box; other site 582744005480 G3 box; other site 582744005481 Switch II region; other site 582744005482 G4 box; other site 582744005483 G5 box; other site 582744005484 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 582744005485 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 582744005486 Trp docking motif [polypeptide binding]; other site 582744005487 active site 582744005488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 582744005489 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 582744005490 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 582744005491 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 582744005492 Walker A/P-loop; other site 582744005493 ATP binding site [chemical binding]; other site 582744005494 Q-loop/lid; other site 582744005495 ABC transporter signature motif; other site 582744005496 Walker B; other site 582744005497 D-loop; other site 582744005498 H-loop/switch region; other site 582744005499 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 582744005500 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 582744005501 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 582744005502 Walker A/P-loop; other site 582744005503 ATP binding site [chemical binding]; other site 582744005504 Q-loop/lid; other site 582744005505 ABC transporter signature motif; other site 582744005506 Walker B; other site 582744005507 D-loop; other site 582744005508 H-loop/switch region; other site 582744005509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 582744005510 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 582744005511 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...; Region: HisRS-like_core; cd00773 582744005512 dimer interface [polypeptide binding]; other site 582744005513 motif 1; other site 582744005514 active site 582744005515 motif 2; other site 582744005516 motif 3; other site 582744005517 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 582744005518 anticodon binding site; other site 582744005519 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 582744005520 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 582744005521 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 582744005522 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 582744005523 non-specific DNA binding site [nucleotide binding]; other site 582744005524 salt bridge; other site 582744005525 sequence-specific DNA binding site [nucleotide binding]; other site 582744005526 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 582744005527 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 582744005528 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 582744005529 binding surface 582744005530 TPR motif; other site 582744005531 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 582744005532 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 582744005533 FeS/SAM binding site; other site 582744005534 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 582744005535 active site 582744005536 multimer interface [polypeptide binding]; other site 582744005537 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 582744005538 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 582744005539 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 582744005540 ribonuclease R; Region: RNase_R; TIGR02063 582744005541 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 582744005542 RNB domain; Region: RNB; pfam00773 582744005543 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...; Region: S1_RNase_R; cd04471 582744005544 RNA binding site [nucleotide binding]; other site 582744005545 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 582744005546 active site 582744005547 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 582744005548 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 582744005549 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 582744005550 NAD(P) binding site [chemical binding]; other site 582744005551 homodimer interface [polypeptide binding]; other site 582744005552 substrate binding site [chemical binding]; other site 582744005553 active site 582744005554 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 582744005555 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 582744005556 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 582744005557 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 582744005558 C factor cell-cell signaling protein; Provisional; Region: PRK09009 582744005559 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 582744005560 NADP binding site [chemical binding]; other site 582744005561 homodimer interface [polypeptide binding]; other site 582744005562 active site 582744005563 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 582744005564 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 582744005565 FeS/SAM binding site; other site 582744005566 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 582744005567 RNA binding surface [nucleotide binding]; other site 582744005568 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 582744005569 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 582744005570 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 582744005571 MoaE homodimer interface [polypeptide binding]; other site 582744005572 MoaD interaction [polypeptide binding]; other site 582744005573 active site residues [active] 582744005574 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 582744005575 MoaE interaction surface [polypeptide binding]; other site 582744005576 MoeB interaction surface [polypeptide binding]; other site 582744005577 thiocarboxylated glycine; other site 582744005578 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 582744005579 RmuC family; Region: RmuC; pfam02646 582744005580 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 582744005581 CHASE2 domain; Region: CHASE2; pfam05226 582744005582 Bacterial SH3 domain; Region: SH3_3; pfam08239 582744005583 Peptidase family M48; Region: Peptidase_M48; pfam01435 582744005584 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 582744005585 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 582744005586 G1 box; other site 582744005587 putative GEF interaction site [polypeptide binding]; other site 582744005588 GTP/Mg2+ binding site [chemical binding]; other site 582744005589 Switch I region; other site 582744005590 G2 box; other site 582744005591 G3 box; other site 582744005592 Switch II region; other site 582744005593 G4 box; other site 582744005594 G5 box; other site 582744005595 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 582744005596 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 582744005597 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 582744005598 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 582744005599 ATP binding site [chemical binding]; other site 582744005600 Mg++ binding site [ion binding]; other site 582744005601 motif III; other site 582744005602 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 582744005603 nucleotide binding region [chemical binding]; other site 582744005604 ATP-binding site [chemical binding]; other site 582744005605 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 582744005606 DEAD-like helicases superfamily; Region: DEXDc; smart00487 582744005607 ATP binding site [chemical binding]; other site 582744005608 Mg++ binding site [ion binding]; other site 582744005609 motif III; other site 582744005610 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 582744005611 nucleotide binding region [chemical binding]; other site 582744005612 ATP-binding site [chemical binding]; other site 582744005613 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 582744005614 apolar tunnel; other site 582744005615 heme binding site [chemical binding]; other site 582744005616 dimerization interface [polypeptide binding]; other site 582744005617 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 582744005618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 582744005619 ATP-grasp domain; Region: ATP-grasp; pfam02222 582744005620 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 582744005621 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744005622 active site 582744005623 phosphorylation site [posttranslational modification] 582744005624 intermolecular recognition site; other site 582744005625 dimerization interface [polypeptide binding]; other site 582744005626 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 582744005627 Walker A motif; other site 582744005628 ATP binding site [chemical binding]; other site 582744005629 Walker B motif; other site 582744005630 arginine finger; other site 582744005631 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744005632 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 582744005633 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 582744005634 N-terminal plug; other site 582744005635 ligand-binding site [chemical binding]; other site 582744005636 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 582744005637 FtsX-like permease family; Region: FtsX; pfam02687 582744005638 FtsX-like permease family; Region: FtsX; pfam02687 582744005639 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 582744005640 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 582744005641 Walker A/P-loop; other site 582744005642 ATP binding site [chemical binding]; other site 582744005643 Q-loop/lid; other site 582744005644 ABC transporter signature motif; other site 582744005645 Walker B; other site 582744005646 D-loop; other site 582744005647 H-loop/switch region; other site 582744005648 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 582744005649 active site 582744005650 catalytic triad [active] 582744005651 oxyanion hole [active] 582744005652 switch loop; other site 582744005653 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 582744005654 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 582744005655 Ligand Binding Site [chemical binding]; other site 582744005656 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 582744005657 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 582744005658 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 582744005659 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 582744005660 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 582744005661 putative active site [active] 582744005662 putative PHP Thumb interface [polypeptide binding]; other site 582744005663 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 582744005664 generic binding surface II; other site 582744005665 generic binding surface I; other site 582744005666 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 582744005667 putative binding surface; other site 582744005668 active site 582744005669 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 582744005670 putative binding surface; other site 582744005671 active site 582744005672 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 582744005673 putative binding surface; other site 582744005674 active site 582744005675 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 582744005676 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 582744005677 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 582744005678 ATP binding site [chemical binding]; other site 582744005679 Mg2+ binding site [ion binding]; other site 582744005680 G-X-G motif; other site 582744005681 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 582744005682 Response regulator receiver domain; Region: Response_reg; pfam00072 582744005683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744005684 active site 582744005685 phosphorylation site [posttranslational modification] 582744005686 intermolecular recognition site; other site 582744005687 dimerization interface [polypeptide binding]; other site 582744005688 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 582744005689 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744005690 dimer interface [polypeptide binding]; other site 582744005691 putative CheW interface [polypeptide binding]; other site 582744005692 CheW-like domain; Region: CheW; pfam01584 582744005693 Response regulator receiver domain; Region: Response_reg; pfam00072 582744005694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744005695 active site 582744005696 phosphorylation site [posttranslational modification] 582744005697 intermolecular recognition site; other site 582744005698 dimerization interface [polypeptide binding]; other site 582744005699 Response regulator receiver domain; Region: Response_reg; pfam00072 582744005700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744005701 active site 582744005702 phosphorylation site [posttranslational modification] 582744005703 intermolecular recognition site; other site 582744005704 dimerization interface [polypeptide binding]; other site 582744005705 Uncharacterized conserved protein [Function unknown]; Region: COG3287 582744005706 FIST N domain; Region: FIST; pfam08495 582744005707 FIST C domain; Region: FIST_C; pfam10442 582744005708 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 582744005709 dimer interface [polypeptide binding]; other site 582744005710 catalytic triad [active] 582744005711 peroxidatic and resolving cysteines [active] 582744005712 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 582744005713 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 582744005714 homodimer interface [polypeptide binding]; other site 582744005715 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 582744005716 active site pocket [active] 582744005717 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 582744005718 TolR protein; Region: tolR; TIGR02801 582744005719 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 582744005720 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 582744005721 Hemin uptake protein hemP; Region: hemP; pfam10636 582744005722 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 582744005723 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 582744005724 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 582744005725 RNA binding surface [nucleotide binding]; other site 582744005726 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 582744005727 heat shock protein 90; Provisional; Region: PRK05218 582744005728 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 582744005729 ATP binding site [chemical binding]; other site 582744005730 Mg2+ binding site [ion binding]; other site 582744005731 G-X-G motif; other site 582744005732 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744005733 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744005734 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 582744005735 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 582744005736 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 582744005737 active site 582744005738 non-prolyl cis peptide bond; other site 582744005739 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744005740 D-galactonate transporter; Region: 2A0114; TIGR00893 582744005741 putative substrate translocation pore; other site 582744005742 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 582744005743 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 582744005744 N-terminal plug; other site 582744005745 ligand-binding site [chemical binding]; other site 582744005746 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 582744005747 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 582744005748 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 582744005749 putative ATP binding site [chemical binding]; other site 582744005750 putative substrate interface [chemical binding]; other site 582744005751 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 582744005752 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...; Region: PNPsynthase; cd00003 582744005753 active site 582744005754 hydrophilic channel; other site 582744005755 dimerization interface [polypeptide binding]; other site 582744005756 catalytic residues [active] 582744005757 active site lid [active] 582744005758 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 582744005759 Recombination protein O N terminal; Region: RecO_N; pfam11967 582744005760 Recombination protein O C terminal; Region: RecO_C; pfam02565 582744005761 GTPase Era; Reviewed; Region: era; PRK00089 582744005762 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 582744005763 G1 box; other site 582744005764 GTP/Mg2+ binding site [chemical binding]; other site 582744005765 Switch I region; other site 582744005766 G2 box; other site 582744005767 Switch II region; other site 582744005768 G3 box; other site 582744005769 G4 box; other site 582744005770 G5 box; other site 582744005771 KH domain; Region: KH_2; pfam07650 582744005772 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 582744005773 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 582744005774 dimerization interface [polypeptide binding]; other site 582744005775 active site 582744005776 metal binding site [ion binding]; metal-binding site 582744005777 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 582744005778 dsRNA binding site [nucleotide binding]; other site 582744005779 signal peptidase I; Provisional; Region: PRK10861 582744005780 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 582744005781 Catalytic site [active] 582744005782 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 582744005783 GTP-binding protein LepA; Provisional; Region: PRK05433 582744005784 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 582744005785 G1 box; other site 582744005786 putative GEF interaction site [polypeptide binding]; other site 582744005787 GTP/Mg2+ binding site [chemical binding]; other site 582744005788 Switch I region; other site 582744005789 G2 box; other site 582744005790 G3 box; other site 582744005791 Switch II region; other site 582744005792 G4 box; other site 582744005793 G5 box; other site 582744005794 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 582744005795 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 582744005796 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 582744005797 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 582744005798 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 582744005799 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 582744005800 protein binding site [polypeptide binding]; other site 582744005801 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 582744005802 protein binding site [polypeptide binding]; other site 582744005803 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 582744005804 anti-sigma E factor; Provisional; Region: rseB; PRK09455 582744005805 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 582744005806 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 582744005807 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744005808 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 582744005809 DNA binding residues [nucleotide binding] 582744005810 L-aspartate oxidase; Provisional; Region: PRK09077 582744005811 L-aspartate oxidase; Provisional; Region: PRK06175 582744005812 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 582744005813 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 582744005814 hypothetical protein; Provisional; Region: PRK05409 582744005815 RNA polymerase sigma factor; Provisional; Region: PRK12520 582744005816 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744005817 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 582744005818 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 582744005819 FIST C domain; Region: FIST_C; pfam10442 582744005820 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 582744005821 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 582744005822 minor groove reading motif; other site 582744005823 helix-hairpin-helix signature motif; other site 582744005824 substrate binding pocket [chemical binding]; other site 582744005825 active site 582744005826 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 582744005827 ferredoxin; Provisional; Region: PRK08764 582744005828 Putative Fe-S cluster; Region: FeS; cl17515 582744005829 4Fe-4S binding domain; Region: Fer4; pfam00037 582744005830 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 582744005831 dihydrodipicolinate synthase; Region: dapA; TIGR00674 582744005832 dimer interface [polypeptide binding]; other site 582744005833 active site 582744005834 catalytic residue [active] 582744005835 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 582744005836 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 582744005837 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 582744005838 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 582744005839 Uncharacterized conserved protein [Function unknown]; Region: COG2850 582744005840 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 582744005841 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 582744005842 catalytic triad [active] 582744005843 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 582744005844 colanic acid exporter; Provisional; Region: PRK10459 582744005845 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 582744005846 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 582744005847 active site 582744005848 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 582744005849 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 582744005850 NAD(P) binding site [chemical binding]; other site 582744005851 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 582744005852 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 582744005853 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 582744005854 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 582744005855 Trp docking motif [polypeptide binding]; other site 582744005856 dimer interface [polypeptide binding]; other site 582744005857 active site 582744005858 small subunit binding site [polypeptide binding]; other site 582744005859 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 582744005860 Acyltransferase family; Region: Acyl_transf_3; pfam01757 582744005861 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 582744005862 ArsC family; Region: ArsC; pfam03960 582744005863 catalytic residues [active] 582744005864 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 582744005865 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 582744005866 MutS domain I; Region: MutS_I; pfam01624 582744005867 MutS domain II; Region: MutS_II; pfam05188 582744005868 MutS domain III; Region: MutS_III; pfam05192 582744005869 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 582744005870 Walker A/P-loop; other site 582744005871 ATP binding site [chemical binding]; other site 582744005872 Q-loop/lid; other site 582744005873 ABC transporter signature motif; other site 582744005874 Walker B; other site 582744005875 D-loop; other site 582744005876 H-loop/switch region; other site 582744005877 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 582744005878 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...; Region: LT_GEWL; cd00254 582744005879 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744005880 catalytic residue [active] 582744005881 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 582744005882 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 582744005883 active site 582744005884 tetramer interface; other site 582744005885 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 582744005886 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 582744005887 NAD binding site [chemical binding]; other site 582744005888 homodimer interface [polypeptide binding]; other site 582744005889 active site 582744005890 substrate binding site [chemical binding]; other site 582744005891 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 582744005892 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 582744005893 Substrate binding site; other site 582744005894 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 582744005895 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 582744005896 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 582744005897 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 582744005898 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 582744005899 DXD motif; other site 582744005900 Predicted membrane protein [Function unknown]; Region: COG2246 582744005901 GtrA-like protein; Region: GtrA; pfam04138 582744005902 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 582744005903 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 582744005904 putative ADP-binding pocket [chemical binding]; other site 582744005905 O-Antigen ligase; Region: Wzy_C; pfam04932 582744005906 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 582744005907 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 582744005908 active site 582744005909 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 582744005910 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 582744005911 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 582744005912 active site 582744005913 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 582744005914 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 582744005915 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 582744005916 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 582744005917 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 582744005918 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 582744005919 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 582744005920 chain length determinant protein EpsF; Region: EpsF; TIGR03017 582744005921 Chain length determinant protein; Region: Wzz; cl15801 582744005922 Chain length determinant protein; Region: Wzz; cl15801 582744005923 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 582744005924 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 582744005925 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 582744005926 SLBB domain; Region: SLBB; pfam10531 582744005927 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 582744005928 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 582744005929 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 582744005930 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 582744005931 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 582744005932 ligand binding site [chemical binding]; other site 582744005933 flexible hinge region; other site 582744005934 transcriptional regulator EpsA; Region: EpsA; TIGR03020 582744005935 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 582744005936 DNA binding residues [nucleotide binding] 582744005937 dimerization interface [polypeptide binding]; other site 582744005938 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 582744005939 Bacterial sugar transferase; Region: Bac_transf; pfam02397 582744005940 PEP-CTERM motif; Region: VPEP; pfam07589 582744005941 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 582744005942 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 582744005943 active site 582744005944 dimerization interface [polypeptide binding]; other site 582744005945 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 582744005946 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 582744005947 serine O-acetyltransferase; Region: cysE; TIGR01172 582744005948 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 582744005949 trimer interface [polypeptide binding]; other site 582744005950 active site 582744005951 substrate binding site [chemical binding]; other site 582744005952 CoA binding site [chemical binding]; other site 582744005953 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 582744005954 Rrf2 family protein; Region: rrf2_super; TIGR00738 582744005955 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 582744005956 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 582744005957 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744005958 catalytic residue [active] 582744005959 cysteine desulfurase; Provisional; Region: PRK14012 582744005960 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 582744005961 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744005962 catalytic residue [active] 582744005963 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 582744005964 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 582744005965 trimerization site [polypeptide binding]; other site 582744005966 active site 582744005967 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 582744005968 co-chaperone HscB; Provisional; Region: hscB; PRK03578 582744005969 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 582744005970 HSP70 interaction site [polypeptide binding]; other site 582744005971 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 582744005972 chaperone protein HscA; Provisional; Region: hscA; PRK05183 582744005973 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 582744005974 nucleotide binding site [chemical binding]; other site 582744005975 putative NEF/HSP70 interaction site [polypeptide binding]; other site 582744005976 SBD interface [polypeptide binding]; other site 582744005977 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 582744005978 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 582744005979 catalytic loop [active] 582744005980 iron binding site [ion binding]; other site 582744005981 putative diguanylate cyclase; Provisional; Region: PRK09776 582744005982 MASE1; Region: MASE1; pfam05231 582744005983 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 582744005984 putative active site [active] 582744005985 heme pocket [chemical binding]; other site 582744005986 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 582744005987 putative active site [active] 582744005988 heme pocket [chemical binding]; other site 582744005989 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 582744005990 putative active site [active] 582744005991 heme pocket [chemical binding]; other site 582744005992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744005993 metal binding site [ion binding]; metal-binding site 582744005994 active site 582744005995 I-site; other site 582744005996 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 582744005997 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 582744005998 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 582744005999 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 582744006000 dimer interface [polypeptide binding]; other site 582744006001 putative anticodon binding site; other site 582744006002 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 582744006003 motif 1; other site 582744006004 active site 582744006005 motif 2; other site 582744006006 motif 3; other site 582744006007 phosphate binding protein; Region: ptsS_2; TIGR02136 582744006008 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 582744006009 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 582744006010 dimer interface [polypeptide binding]; other site 582744006011 conserved gate region; other site 582744006012 putative PBP binding loops; other site 582744006013 ABC-ATPase subunit interface; other site 582744006014 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 582744006015 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 582744006016 dimer interface [polypeptide binding]; other site 582744006017 conserved gate region; other site 582744006018 putative PBP binding loops; other site 582744006019 ABC-ATPase subunit interface; other site 582744006020 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 582744006021 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 582744006022 Walker A/P-loop; other site 582744006023 ATP binding site [chemical binding]; other site 582744006024 Q-loop/lid; other site 582744006025 ABC transporter signature motif; other site 582744006026 Walker B; other site 582744006027 D-loop; other site 582744006028 H-loop/switch region; other site 582744006029 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 582744006030 hydroxyglutarate oxidase; Provisional; Region: PRK11728 582744006031 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 582744006032 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 582744006033 putative ADP-binding pocket [chemical binding]; other site 582744006034 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 582744006035 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 582744006036 Cupin domain; Region: Cupin_2; cl17218 582744006037 Helix-turn-helix domain; Region: HTH_18; pfam12833 582744006038 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744006039 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 582744006040 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; cd01610 582744006041 active site 582744006042 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 582744006043 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 582744006044 active site 582744006045 substrate binding site [chemical binding]; other site 582744006046 metal binding site [ion binding]; metal-binding site 582744006047 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 582744006048 dihydropteroate synthase; Region: DHPS; TIGR01496 582744006049 substrate binding pocket [chemical binding]; other site 582744006050 dimer interface [polypeptide binding]; other site 582744006051 inhibitor binding site; inhibition site 582744006052 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 582744006053 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 582744006054 Walker A motif; other site 582744006055 ATP binding site [chemical binding]; other site 582744006056 Walker B motif; other site 582744006057 arginine finger; other site 582744006058 Peptidase family M41; Region: Peptidase_M41; pfam01434 582744006059 FtsJ-like methyltransferase; Region: FtsJ; cl17430 582744006060 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 582744006061 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 582744006062 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 582744006063 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 582744006064 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 582744006065 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 582744006066 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 582744006067 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 582744006068 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 582744006069 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 582744006070 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 582744006071 ATP-grasp domain; Region: ATP-grasp_4; cl17255 582744006072 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 582744006073 IMP binding site; other site 582744006074 dimer interface [polypeptide binding]; other site 582744006075 interdomain contacts; other site 582744006076 partial ornithine binding site; other site 582744006077 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 582744006078 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 582744006079 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 582744006080 catalytic site [active] 582744006081 subunit interface [polypeptide binding]; other site 582744006082 dihydrodipicolinate reductase; Provisional; Region: PRK00048 582744006083 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 582744006084 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 582744006085 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 582744006086 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 582744006087 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 582744006088 metal binding site 2 [ion binding]; metal-binding site 582744006089 putative DNA binding helix; other site 582744006090 metal binding site 1 [ion binding]; metal-binding site 582744006091 dimer interface [polypeptide binding]; other site 582744006092 structural Zn2+ binding site [ion binding]; other site 582744006093 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 582744006094 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 582744006095 Walker A/P-loop; other site 582744006096 ATP binding site [chemical binding]; other site 582744006097 Q-loop/lid; other site 582744006098 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 582744006099 ABC transporter signature motif; other site 582744006100 Walker B; other site 582744006101 D-loop; other site 582744006102 H-loop/switch region; other site 582744006103 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 582744006104 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 582744006105 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 582744006106 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 582744006107 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 582744006108 Flagellar protein YcgR; Region: YcgR_2; pfam12945 582744006109 PilZ domain; Region: PilZ; pfam07238 582744006110 ferrochelatase; Reviewed; Region: hemH; PRK00035 582744006111 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 582744006112 C-terminal domain interface [polypeptide binding]; other site 582744006113 active site 582744006114 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 582744006115 active site 582744006116 N-terminal domain interface [polypeptide binding]; other site 582744006117 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 582744006118 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 582744006119 NADP binding site [chemical binding]; other site 582744006120 homopentamer interface [polypeptide binding]; other site 582744006121 substrate binding site [chemical binding]; other site 582744006122 active site 582744006123 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 582744006124 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 582744006125 dimer interface [polypeptide binding]; other site 582744006126 active site 582744006127 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 582744006128 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 582744006129 putative ribose interaction site [chemical binding]; other site 582744006130 putative ADP binding site [chemical binding]; other site 582744006131 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 582744006132 active site 582744006133 nucleotide binding site [chemical binding]; other site 582744006134 HIGH motif; other site 582744006135 KMSKS motif; other site 582744006136 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 582744006137 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 582744006138 putative active site [active] 582744006139 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 582744006140 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 582744006141 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 582744006142 putative ADP-binding pocket [chemical binding]; other site 582744006143 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 582744006144 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 582744006145 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 582744006146 active site 582744006147 intersubunit interface [polypeptide binding]; other site 582744006148 catalytic residue [active] 582744006149 phosphogluconate dehydratase; Validated; Region: PRK09054 582744006150 6-phosphogluconate dehydratase; Region: edd; TIGR01196 582744006151 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 582744006152 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 582744006153 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 582744006154 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 582744006155 active site 582744006156 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 582744006157 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 582744006158 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 582744006159 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 582744006160 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 582744006161 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 582744006162 putative active site [active] 582744006163 GrpE; Region: GrpE; pfam01025 582744006164 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 582744006165 dimer interface [polypeptide binding]; other site 582744006166 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 582744006167 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 582744006168 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 582744006169 nucleotide binding site [chemical binding]; other site 582744006170 chaperone protein DnaJ; Provisional; Region: PRK10767 582744006171 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 582744006172 HSP70 interaction site [polypeptide binding]; other site 582744006173 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 582744006174 substrate binding site [polypeptide binding]; other site 582744006175 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 582744006176 Zn binding sites [ion binding]; other site 582744006177 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 582744006178 dimer interface [polypeptide binding]; other site 582744006179 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 582744006180 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 582744006181 putative active site [active] 582744006182 O-Antigen ligase; Region: Wzy_C; pfam04932 582744006183 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 582744006184 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 582744006185 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 582744006186 putative active site [active] 582744006187 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 582744006188 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 582744006189 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 582744006190 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 582744006191 putative ADP-binding pocket [chemical binding]; other site 582744006192 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 582744006193 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 582744006194 2-isopropylmalate synthase; Validated; Region: PRK03739 582744006195 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 582744006196 active site 582744006197 catalytic residues [active] 582744006198 metal binding site [ion binding]; metal-binding site 582744006199 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 582744006200 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; cd00312 582744006201 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 582744006202 substrate binding pocket [chemical binding]; other site 582744006203 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 582744006204 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 582744006205 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 582744006206 dimer interface [polypeptide binding]; other site 582744006207 active site 582744006208 metal binding site [ion binding]; metal-binding site 582744006209 glutathione binding site [chemical binding]; other site 582744006210 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 582744006211 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744006212 dimer interface [polypeptide binding]; other site 582744006213 putative CheW interface [polypeptide binding]; other site 582744006214 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 582744006215 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 582744006216 substrate binding pocket [chemical binding]; other site 582744006217 membrane-bound complex binding site; other site 582744006218 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 582744006219 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 582744006220 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 582744006221 active site 582744006222 (T/H)XGH motif; other site 582744006223 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 582744006224 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 582744006225 S-adenosylmethionine binding site [chemical binding]; other site 582744006226 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 582744006227 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 582744006228 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 582744006229 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 582744006230 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 582744006231 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 582744006232 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 582744006233 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 582744006234 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 582744006235 P loop; other site 582744006236 GTP binding site [chemical binding]; other site 582744006237 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 582744006238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744006239 Walker A/P-loop; other site 582744006240 ATP binding site [chemical binding]; other site 582744006241 Q-loop/lid; other site 582744006242 ABC transporter signature motif; other site 582744006243 Walker B; other site 582744006244 D-loop; other site 582744006245 H-loop/switch region; other site 582744006246 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 582744006247 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 582744006248 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 582744006249 dimerization interface [polypeptide binding]; other site 582744006250 active site 582744006251 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 582744006252 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 582744006253 FAD binding pocket [chemical binding]; other site 582744006254 FAD binding motif [chemical binding]; other site 582744006255 phosphate binding motif [ion binding]; other site 582744006256 beta-alpha-beta structure motif; other site 582744006257 NAD binding pocket [chemical binding]; other site 582744006258 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 582744006259 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 582744006260 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 582744006261 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 582744006262 Ligand binding site [chemical binding]; other site 582744006263 Electron transfer flavoprotein domain; Region: ETF; pfam01012 582744006264 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 582744006265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744006266 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 582744006267 putative dimerization interface [polypeptide binding]; other site 582744006268 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 582744006269 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 582744006270 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 582744006271 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 582744006272 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 582744006273 PhnA protein; Region: PhnA; pfam03831 582744006274 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 582744006275 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 582744006276 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 582744006277 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 582744006278 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 582744006279 homodimer interface [polypeptide binding]; other site 582744006280 substrate-cofactor binding pocket; other site 582744006281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744006282 catalytic residue [active] 582744006283 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 582744006284 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 582744006285 Walker A/P-loop; other site 582744006286 ATP binding site [chemical binding]; other site 582744006287 Q-loop/lid; other site 582744006288 ABC transporter signature motif; other site 582744006289 Walker B; other site 582744006290 D-loop; other site 582744006291 H-loop/switch region; other site 582744006292 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 582744006293 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 582744006294 putative ligand binding site [chemical binding]; other site 582744006295 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 582744006296 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 582744006297 TM-ABC transporter signature motif; other site 582744006298 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 582744006299 TM-ABC transporter signature motif; other site 582744006300 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 582744006301 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 582744006302 Walker A/P-loop; other site 582744006303 ATP binding site [chemical binding]; other site 582744006304 Q-loop/lid; other site 582744006305 ABC transporter signature motif; other site 582744006306 Walker B; other site 582744006307 D-loop; other site 582744006308 H-loop/switch region; other site 582744006309 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 582744006310 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 582744006311 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 582744006312 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 582744006313 active site 582744006314 dimer interface [polypeptide binding]; other site 582744006315 non-prolyl cis peptide bond; other site 582744006316 insertion regions; other site 582744006317 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 582744006318 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 582744006319 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 582744006320 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 582744006321 Flavin binding site [chemical binding]; other site 582744006322 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744006323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744006324 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 582744006325 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 582744006326 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 582744006327 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744006328 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 582744006329 Protein export membrane protein; Region: SecD_SecF; cl14618 582744006330 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 582744006331 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 582744006332 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 582744006333 active site 582744006334 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 582744006335 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 582744006336 active site 582744006337 dimer interface [polypeptide binding]; other site 582744006338 non-prolyl cis peptide bond; other site 582744006339 insertion regions; other site 582744006340 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 582744006341 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 582744006342 Flavin binding site [chemical binding]; other site 582744006343 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 582744006344 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 582744006345 Walker A motif; other site 582744006346 ATP binding site [chemical binding]; other site 582744006347 Walker B motif; other site 582744006348 arginine finger; other site 582744006349 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744006350 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 582744006351 dimerization interface [polypeptide binding]; other site 582744006352 active site 582744006353 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 582744006354 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 582744006355 substrate binding pocket [chemical binding]; other site 582744006356 membrane-bound complex binding site; other site 582744006357 hinge residues; other site 582744006358 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744006359 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744006360 metal binding site [ion binding]; metal-binding site 582744006361 active site 582744006362 I-site; other site 582744006363 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 582744006364 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 582744006365 active site 582744006366 nucleophile elbow; other site 582744006367 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 582744006368 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 582744006369 N-terminal plug; other site 582744006370 ligand-binding site [chemical binding]; other site 582744006371 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 582744006372 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744006373 putative substrate translocation pore; other site 582744006374 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 582744006375 hypothetical protein; Provisional; Region: PRK10649 582744006376 Sulfatase; Region: Sulfatase; pfam00884 582744006377 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 582744006378 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 582744006379 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 582744006380 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 582744006381 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744006382 Coenzyme A binding pocket [chemical binding]; other site 582744006383 Protein of unknown function (DUF330); Region: DUF330; pfam03886 582744006384 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 582744006385 mce related protein; Region: MCE; pfam02470 582744006386 mce related protein; Region: MCE; pfam02470 582744006387 mce related protein; Region: MCE; pfam02470 582744006388 Paraquat-inducible protein A; Region: PqiA; pfam04403 582744006389 Paraquat-inducible protein A; Region: PqiA; pfam04403 582744006390 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 582744006391 Autotransporter beta-domain; Region: Autotransporter; smart00869 582744006392 Predicted membrane protein [Function unknown]; Region: COG2510 582744006393 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 582744006394 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 582744006395 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 582744006396 intersubunit interface [polypeptide binding]; other site 582744006397 active site 582744006398 Zn2+ binding site [ion binding]; other site 582744006399 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 582744006400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744006401 Walker A/P-loop; other site 582744006402 ATP binding site [chemical binding]; other site 582744006403 Q-loop/lid; other site 582744006404 ABC transporter signature motif; other site 582744006405 Walker B; other site 582744006406 D-loop; other site 582744006407 H-loop/switch region; other site 582744006408 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 582744006409 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 582744006410 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744006411 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744006412 hypothetical protein; Validated; Region: PRK09039 582744006413 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 582744006414 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 582744006415 putative hydrophobic ligand binding site [chemical binding]; other site 582744006416 protein interface [polypeptide binding]; other site 582744006417 gate; other site 582744006418 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744006419 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744006420 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 582744006421 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 582744006422 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744006423 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 582744006424 DNA binding residues [nucleotide binding] 582744006425 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 582744006426 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 582744006427 Dynamin family; Region: Dynamin_N; pfam00350 582744006428 G1 box; other site 582744006429 GTP/Mg2+ binding site [chemical binding]; other site 582744006430 G2 box; other site 582744006431 Switch I region; other site 582744006432 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 582744006433 G3 box; other site 582744006434 Switch II region; other site 582744006435 GTP/Mg2+ binding site [chemical binding]; other site 582744006436 G4 box; other site 582744006437 G5 box; other site 582744006438 Protein of unknown function (DUF971); Region: DUF971; pfam06155 582744006439 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 582744006440 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 582744006441 S-adenosylmethionine binding site [chemical binding]; other site 582744006442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 582744006443 SCP-2 sterol transfer family; Region: SCP2; pfam02036 582744006444 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 582744006445 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 582744006446 active site 582744006447 substrate binding site [chemical binding]; other site 582744006448 ATP binding site [chemical binding]; other site 582744006449 HDOD domain; Region: HDOD; pfam08668 582744006450 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 582744006451 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 582744006452 Na binding site [ion binding]; other site 582744006453 putative glycosylation site [posttranslational modification]; other site 582744006454 putative glycosylation site [posttranslational modification]; other site 582744006455 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 582744006456 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 582744006457 DNA binding site [nucleotide binding] 582744006458 catalytic residue [active] 582744006459 H2TH interface [polypeptide binding]; other site 582744006460 putative catalytic residues [active] 582744006461 turnover-facilitating residue; other site 582744006462 intercalation triad [nucleotide binding]; other site 582744006463 8OG recognition residue [nucleotide binding]; other site 582744006464 putative reading head residues; other site 582744006465 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 582744006466 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 582744006467 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 582744006468 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 582744006469 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 582744006470 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 582744006471 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 582744006472 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 582744006473 Walker A/P-loop; other site 582744006474 ATP binding site [chemical binding]; other site 582744006475 Q-loop/lid; other site 582744006476 ABC transporter signature motif; other site 582744006477 Walker B; other site 582744006478 D-loop; other site 582744006479 H-loop/switch region; other site 582744006480 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 582744006481 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 582744006482 binding surface 582744006483 TPR motif; other site 582744006484 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 582744006485 TPR motif; other site 582744006486 binding surface 582744006487 TPR repeat; Region: TPR_11; pfam13414 582744006488 TPR repeat; Region: TPR_11; pfam13414 582744006489 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 582744006490 binding surface 582744006491 TPR motif; other site 582744006492 TPR repeat; Region: TPR_11; pfam13414 582744006493 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 582744006494 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 582744006495 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 582744006496 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 582744006497 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 582744006498 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 582744006499 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 582744006500 active site 582744006501 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 582744006502 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 582744006503 5S rRNA interface [nucleotide binding]; other site 582744006504 CTC domain interface [polypeptide binding]; other site 582744006505 L16 interface [polypeptide binding]; other site 582744006506 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 582744006507 putative active site [active] 582744006508 catalytic residue [active] 582744006509 GTP-binding protein YchF; Reviewed; Region: PRK09601 582744006510 YchF GTPase; Region: YchF; cd01900 582744006511 G1 box; other site 582744006512 GTP/Mg2+ binding site [chemical binding]; other site 582744006513 Switch I region; other site 582744006514 G2 box; other site 582744006515 Switch II region; other site 582744006516 G3 box; other site 582744006517 G4 box; other site 582744006518 G5 box; other site 582744006519 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 582744006520 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 582744006521 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 582744006522 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 582744006523 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 582744006524 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 582744006525 Chorismate mutase type II; Region: CM_2; smart00830 582744006526 KCNQ voltage-gated potassium channel; Region: KCNQ_channel; pfam03520 582744006527 YadA-like C-terminal region; Region: YadA; pfam03895 582744006528 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 582744006529 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 582744006530 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 582744006531 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 582744006532 Walker A motif; other site 582744006533 ATP binding site [chemical binding]; other site 582744006534 Walker B motif; other site 582744006535 arginine finger; other site 582744006536 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 582744006537 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 582744006538 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 582744006539 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 582744006540 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006541 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006542 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006543 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006544 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744006545 Walker A motif; other site 582744006546 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 582744006547 phosphodiesterase; Provisional; Region: PRK12704 582744006548 type IV conjugative transfer system coupling protein TraD; Region: TraD_Ftype; TIGR02759 582744006549 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744006550 Walker A motif; other site 582744006551 ATP binding site [chemical binding]; other site 582744006552 Walker B motif; other site 582744006553 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 582744006554 AAA domain; Region: AAA_30; pfam13604 582744006555 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006556 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006557 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006558 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006559 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006560 TonB C terminal; Region: TonB_2; pfam13103 582744006561 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006562 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 582744006563 Phage associated DNA primase [General function prediction only]; Region: COG3378 582744006564 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 582744006565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744006566 Coenzyme A binding pocket [chemical binding]; other site 582744006567 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 582744006568 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 582744006569 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 582744006570 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 582744006571 active site 582744006572 catalytic residues [active] 582744006573 DNA binding site [nucleotide binding] 582744006574 Int/Topo IB signature motif; other site 582744006575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744006576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744006577 AAA domain; Region: AAA_21; pfam13304 582744006578 Walker A/P-loop; other site 582744006579 Walker A/P-loop; other site 582744006580 ATP binding site [chemical binding]; other site 582744006581 ATP binding site [chemical binding]; other site 582744006582 Q-loop/lid; other site 582744006583 ABC transporter signature motif; other site 582744006584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744006585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744006586 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 582744006587 dimerization interface [polypeptide binding]; other site 582744006588 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 582744006589 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 582744006590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 582744006591 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 582744006592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744006593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 582744006594 Coenzyme A binding pocket [chemical binding]; other site 582744006595 Staphylococcal nuclease homologues; Region: SNc; smart00318 582744006596 Catalytic site; other site 582744006597 Staphylococcal nuclease homologue; Region: SNase; pfam00565 582744006598 putative metal dependent hydrolase; Provisional; Region: PRK11598 582744006599 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 582744006600 Sulfatase; Region: Sulfatase; pfam00884 582744006601 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 582744006602 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 582744006603 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 582744006604 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 582744006605 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 582744006606 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 582744006607 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 582744006608 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 582744006609 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 582744006610 Predicted membrane protein [Function unknown]; Region: COG2259 582744006611 Pirin-related protein [General function prediction only]; Region: COG1741 582744006612 Pirin; Region: Pirin; pfam02678 582744006613 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 582744006614 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 582744006615 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 582744006616 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744006617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744006618 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 582744006619 putative effector binding pocket; other site 582744006620 dimerization interface [polypeptide binding]; other site 582744006621 LexA repressor; Validated; Region: PRK00215 582744006622 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 582744006623 Catalytic site [active] 582744006624 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 582744006625 Protein of unknown function, DUF482; Region: DUF482; pfam04339 582744006626 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 582744006627 EF-hand domain pair; Region: EF_hand_5; pfam13499 582744006628 Ca2+ binding site [ion binding]; other site 582744006629 osmolarity response regulator; Provisional; Region: ompR; PRK09468 582744006630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744006631 active site 582744006632 phosphorylation site [posttranslational modification] 582744006633 intermolecular recognition site; other site 582744006634 dimerization interface [polypeptide binding]; other site 582744006635 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 582744006636 DNA binding site [nucleotide binding] 582744006637 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 582744006638 dimerization interface [polypeptide binding]; other site 582744006639 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 582744006640 dimer interface [polypeptide binding]; other site 582744006641 phosphorylation site [posttranslational modification] 582744006642 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 582744006643 ATP binding site [chemical binding]; other site 582744006644 Mg2+ binding site [ion binding]; other site 582744006645 G-X-G motif; other site 582744006646 siroheme synthase; Provisional; Region: cysG; PRK10637 582744006647 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 582744006648 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 582744006649 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 582744006650 active site 582744006651 SAM binding site [chemical binding]; other site 582744006652 homodimer interface [polypeptide binding]; other site 582744006653 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 582744006654 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 582744006655 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 582744006656 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 582744006657 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 582744006658 putative hemin binding site; other site 582744006659 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 582744006660 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 582744006661 ABC-ATPase subunit interface; other site 582744006662 dimer interface [polypeptide binding]; other site 582744006663 putative PBP binding regions; other site 582744006664 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 582744006665 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 582744006666 Walker A/P-loop; other site 582744006667 ATP binding site [chemical binding]; other site 582744006668 Q-loop/lid; other site 582744006669 ABC transporter signature motif; other site 582744006670 Walker B; other site 582744006671 D-loop; other site 582744006672 H-loop/switch region; other site 582744006673 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 582744006674 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 582744006675 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 582744006676 FeS/SAM binding site; other site 582744006677 TRAM domain; Region: TRAM; pfam01938 582744006678 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 582744006679 PhoH-like protein; Region: PhoH; pfam02562 582744006680 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 582744006681 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 582744006682 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 582744006683 Transporter associated domain; Region: CorC_HlyC; smart01091 582744006684 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 582744006685 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 582744006686 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 582744006687 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 582744006688 putative active site [active] 582744006689 catalytic triad [active] 582744006690 putative dimer interface [polypeptide binding]; other site 582744006691 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 582744006692 dimer interface [polypeptide binding]; other site 582744006693 motif 1; other site 582744006694 active site 582744006695 motif 2; other site 582744006696 motif 3; other site 582744006697 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 582744006698 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 582744006699 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 582744006700 active site 582744006701 motif I; other site 582744006702 motif II; other site 582744006703 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 582744006704 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 582744006705 putative acyl-acceptor binding pocket; other site 582744006706 Protein of unknown function DUF45; Region: DUF45; pfam01863 582744006707 Predicted transcriptional regulator [Transcription]; Region: COG1959 582744006708 Transcriptional regulator; Region: Rrf2; cl17282 582744006709 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 582744006710 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 582744006711 heme-binding site [chemical binding]; other site 582744006712 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 582744006713 FAD binding pocket [chemical binding]; other site 582744006714 FAD binding motif [chemical binding]; other site 582744006715 phosphate binding motif [ion binding]; other site 582744006716 beta-alpha-beta structure motif; other site 582744006717 NAD binding pocket [chemical binding]; other site 582744006718 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 582744006719 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 582744006720 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 582744006721 heme binding site [chemical binding]; other site 582744006722 ferroxidase pore; other site 582744006723 ferroxidase diiron center [ion binding]; other site 582744006724 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 582744006725 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 582744006726 heme binding site [chemical binding]; other site 582744006727 ferroxidase pore; other site 582744006728 ferroxidase diiron center [ion binding]; other site 582744006729 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 582744006730 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 582744006731 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 582744006732 metal-binding site [ion binding] 582744006733 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 582744006734 Soluble P-type ATPase [General function prediction only]; Region: COG4087 582744006735 FixH; Region: FixH; pfam05751 582744006736 YtkA-like; Region: YtkA; pfam13115 582744006737 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 582744006738 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 582744006739 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 582744006740 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 582744006741 Cytochrome c; Region: Cytochrom_C; pfam00034 582744006742 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 582744006743 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 582744006744 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 582744006745 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 582744006746 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 582744006747 Low-spin heme binding site [chemical binding]; other site 582744006748 Putative water exit pathway; other site 582744006749 Binuclear center (active site) [active] 582744006750 Putative proton exit pathway; other site 582744006751 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 582744006752 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 582744006753 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 582744006754 homodimer interface [polypeptide binding]; other site 582744006755 substrate-cofactor binding pocket; other site 582744006756 catalytic residue [active] 582744006757 Zinc-finger domain; Region: zf-CHCC; cl01821 582744006758 glutamate racemase; Provisional; Region: PRK00865 582744006759 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 582744006760 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 582744006761 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 582744006762 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 582744006763 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 582744006764 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 582744006765 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 582744006766 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 582744006767 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 582744006768 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 582744006769 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744006770 catalytic residue [active] 582744006771 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 582744006772 trimer interface [polypeptide binding]; other site 582744006773 active site 582744006774 substrate binding site [chemical binding]; other site 582744006775 CoA binding site [chemical binding]; other site 582744006776 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 582744006777 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 582744006778 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 582744006779 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 582744006780 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 582744006781 dimer interface [polypeptide binding]; other site 582744006782 conserved gate region; other site 582744006783 putative PBP binding loops; other site 582744006784 ABC-ATPase subunit interface; other site 582744006785 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 582744006786 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 582744006787 dimer interface [polypeptide binding]; other site 582744006788 conserved gate region; other site 582744006789 putative PBP binding loops; other site 582744006790 ABC-ATPase subunit interface; other site 582744006791 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 582744006792 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 582744006793 Walker A/P-loop; other site 582744006794 ATP binding site [chemical binding]; other site 582744006795 Q-loop/lid; other site 582744006796 ABC transporter signature motif; other site 582744006797 Walker B; other site 582744006798 D-loop; other site 582744006799 H-loop/switch region; other site 582744006800 TOBE-like domain; Region: TOBE_3; pfam12857 582744006801 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 582744006802 Predicted transporter component [General function prediction only]; Region: COG2391 582744006803 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 582744006804 Predicted transporter component [General function prediction only]; Region: COG2391 582744006805 Sulphur transport; Region: Sulf_transp; pfam04143 582744006806 poly(A) polymerase; Region: pcnB; TIGR01942 582744006807 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 582744006808 active site 582744006809 NTP binding site [chemical binding]; other site 582744006810 metal binding triad [ion binding]; metal-binding site 582744006811 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 582744006812 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 582744006813 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 582744006814 catalytic center binding site [active] 582744006815 ATP binding site [chemical binding]; other site 582744006816 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 582744006817 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 582744006818 Substrate-binding site [chemical binding]; other site 582744006819 Substrate specificity [chemical binding]; other site 582744006820 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 582744006821 oligomerization interface [polypeptide binding]; other site 582744006822 active site 582744006823 metal binding site [ion binding]; metal-binding site 582744006824 Pantoate-beta-alanine ligase; Region: PanC; cd00560 582744006825 pantoate--beta-alanine ligase; Region: panC; TIGR00018 582744006826 active site 582744006827 ATP-binding site [chemical binding]; other site 582744006828 pantoate-binding site; other site 582744006829 HXXH motif; other site 582744006830 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 582744006831 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; cd00312 582744006832 substrate binding pocket [chemical binding]; other site 582744006833 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744006834 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 582744006835 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 582744006836 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 582744006837 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 582744006838 FecR protein; Region: FecR; pfam04773 582744006839 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 582744006840 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 582744006841 DNA binding residues [nucleotide binding] 582744006842 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 582744006843 tetramerization interface [polypeptide binding]; other site 582744006844 active site 582744006845 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 582744006846 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 582744006847 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 582744006848 DNA photolyase; Region: DNA_photolyase; pfam00875 582744006849 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 582744006850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744006851 putative substrate translocation pore; other site 582744006852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744006853 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 582744006854 AMP binding site [chemical binding]; other site 582744006855 metal binding site [ion binding]; metal-binding site 582744006856 active site 582744006857 VacJ like lipoprotein; Region: VacJ; cl01073 582744006858 peptidase PmbA; Provisional; Region: PRK11040 582744006859 hypothetical protein; Provisional; Region: PRK05255 582744006860 Site-specific recombinase; Region: SpecificRecomb; pfam10136 582744006861 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 582744006862 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 582744006863 MPT binding site; other site 582744006864 trimer interface [polypeptide binding]; other site 582744006865 thiamine monophosphate kinase; Provisional; Region: PRK05731 582744006866 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 582744006867 ATP binding site [chemical binding]; other site 582744006868 dimerization interface [polypeptide binding]; other site 582744006869 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 582744006870 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 582744006871 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 582744006872 tetramer interfaces [polypeptide binding]; other site 582744006873 binuclear metal-binding site [ion binding]; other site 582744006874 Competence-damaged protein; Region: CinA; pfam02464 582744006875 recombinase A; Provisional; Region: recA; PRK09354 582744006876 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 582744006877 hexamer interface [polypeptide binding]; other site 582744006878 Walker A motif; other site 582744006879 ATP binding site [chemical binding]; other site 582744006880 Walker B motif; other site 582744006881 RecX family; Region: RecX; pfam02631 582744006882 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 582744006883 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...; Region: AlaRS_core; cd00673 582744006884 motif 1; other site 582744006885 active site 582744006886 motif 2; other site 582744006887 motif 3; other site 582744006888 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 582744006889 aspartate kinase; Reviewed; Region: PRK06635 582744006890 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 582744006891 putative nucleotide binding site [chemical binding]; other site 582744006892 putative catalytic residues [active] 582744006893 putative Mg ion binding site [ion binding]; other site 582744006894 putative aspartate binding site [chemical binding]; other site 582744006895 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 582744006896 putative allosteric regulatory site; other site 582744006897 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 582744006898 putative allosteric regulatory residue; other site 582744006899 hydroperoxidase II; Provisional; Region: katE; PRK11249 582744006900 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 582744006901 tetramer interface [polypeptide binding]; other site 582744006902 heme binding pocket [chemical binding]; other site 582744006903 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 582744006904 domain interactions; other site 582744006905 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 582744006906 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 582744006907 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744006908 dimer interface [polypeptide binding]; other site 582744006909 putative CheW interface [polypeptide binding]; other site 582744006910 Malic enzyme, N-terminal domain; Region: malic; pfam00390 582744006911 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 582744006912 putative NAD(P) binding site [chemical binding]; other site 582744006913 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 582744006914 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744006915 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 582744006916 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744006917 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 582744006918 CHASE3 domain; Region: CHASE3; pfam05227 582744006919 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 582744006920 dimer interface [polypeptide binding]; other site 582744006921 phosphorylation site [posttranslational modification] 582744006922 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 582744006923 ATP binding site [chemical binding]; other site 582744006924 Mg2+ binding site [ion binding]; other site 582744006925 G-X-G motif; other site 582744006926 Response regulator receiver domain; Region: Response_reg; pfam00072 582744006927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744006928 active site 582744006929 phosphorylation site [posttranslational modification] 582744006930 intermolecular recognition site; other site 582744006931 dimerization interface [polypeptide binding]; other site 582744006932 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 582744006933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744006934 active site 582744006935 phosphorylation site [posttranslational modification] 582744006936 intermolecular recognition site; other site 582744006937 dimerization interface [polypeptide binding]; other site 582744006938 PAS fold; Region: PAS_4; pfam08448 582744006939 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 582744006940 putative active site [active] 582744006941 heme pocket [chemical binding]; other site 582744006942 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 582744006943 PAS domain; Region: PAS_9; pfam13426 582744006944 putative active site [active] 582744006945 heme pocket [chemical binding]; other site 582744006946 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744006947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744006948 metal binding site [ion binding]; metal-binding site 582744006949 active site 582744006950 I-site; other site 582744006951 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 582744006952 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 582744006953 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 582744006954 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 582744006955 HPP family; Region: HPP; pfam04982 582744006956 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 582744006957 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 582744006958 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 582744006959 dinuclear metal binding motif [ion binding]; other site 582744006960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744006961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744006962 YyzF-like protein; Region: YyzF; cl15733 582744006963 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 582744006964 FMN binding site [chemical binding]; other site 582744006965 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 582744006966 dimer interface [polypeptide binding]; other site 582744006967 PEP synthetase regulatory protein; Provisional; Region: PRK05339 582744006968 phosphoenolpyruvate synthase; Validated; Region: PRK06464 582744006969 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 582744006970 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 582744006971 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 582744006972 Protein of unknown function, DUF481; Region: DUF481; pfam04338 582744006973 HAD-superfamily subfamily IIA hydrolase, TIGR01458; Region: HAD-SF-IIA-hyp3 582744006974 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 582744006975 active site 582744006976 motif I; other site 582744006977 motif II; other site 582744006978 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 582744006979 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 582744006980 active site 582744006981 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 582744006982 YaeQ protein; Region: YaeQ; pfam07152 582744006983 signal recognition particle protein; Provisional; Region: PRK10867 582744006984 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 582744006985 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 582744006986 P loop; other site 582744006987 GTP binding site [chemical binding]; other site 582744006988 Signal peptide binding domain; Region: SRP_SPB; pfam02978 582744006989 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 582744006990 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 582744006991 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 582744006992 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 582744006993 Predicted membrane protein [Function unknown]; Region: COG3235 582744006994 2-isopropylmalate synthase; Validated; Region: PRK00915 582744006995 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 582744006996 active site 582744006997 catalytic residues [active] 582744006998 metal binding site [ion binding]; metal-binding site 582744006999 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 582744007000 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 582744007001 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 582744007002 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 582744007003 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 582744007004 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 582744007005 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 582744007006 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 582744007007 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 582744007008 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 582744007009 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 582744007010 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 582744007011 Protein export membrane protein; Region: SecD_SecF; pfam02355 582744007012 Domain of unknown function DUF21; Region: DUF21; pfam01595 582744007013 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 582744007014 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 582744007015 Transporter associated domain; Region: CorC_HlyC; smart01091 582744007016 Uncharacterized conserved protein [Function unknown]; Region: COG2127 582744007017 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 582744007018 Clp amino terminal domain; Region: Clp_N; pfam02861 582744007019 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 582744007020 Walker A motif; other site 582744007021 ATP binding site [chemical binding]; other site 582744007022 Walker B motif; other site 582744007023 arginine finger; other site 582744007024 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 582744007025 Walker A motif; other site 582744007026 ATP binding site [chemical binding]; other site 582744007027 Walker B motif; other site 582744007028 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 582744007029 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 582744007030 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 582744007031 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 582744007032 putative N-terminal domain interface [polypeptide binding]; other site 582744007033 putative dimer interface [polypeptide binding]; other site 582744007034 putative substrate binding pocket (H-site) [chemical binding]; other site 582744007035 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 582744007036 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 582744007037 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 582744007038 quinone interaction residues [chemical binding]; other site 582744007039 active site 582744007040 catalytic residues [active] 582744007041 FMN binding site [chemical binding]; other site 582744007042 substrate binding site [chemical binding]; other site 582744007043 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 582744007044 Nitrogen regulatory protein P-II; Region: P-II; smart00938 582744007045 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 582744007046 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 582744007047 Nitrogen regulatory protein P-II; Region: P-II; smart00938 582744007048 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 582744007049 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744007050 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 582744007051 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744007052 Outer membrane efflux protein; Region: OEP; pfam02321 582744007053 Outer membrane efflux protein; Region: OEP; pfam02321 582744007054 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 582744007055 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 582744007056 active site 582744007057 HIGH motif; other site 582744007058 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 582744007059 KMSKS motif; other site 582744007060 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 582744007061 tRNA binding surface [nucleotide binding]; other site 582744007062 anticodon binding site; other site 582744007063 TPR repeat; Region: TPR_11; pfam13414 582744007064 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 582744007065 binding surface 582744007066 TPR motif; other site 582744007067 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744007068 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 582744007069 SnoaL-like domain; Region: SnoaL_3; pfam13474 582744007070 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 582744007071 binding surface 582744007072 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 582744007073 SnoaL-like domain; Region: SnoaL_3; pfam13474 582744007074 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 582744007075 substrate binding site [chemical binding]; other site 582744007076 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 582744007077 substrate binding site [chemical binding]; other site 582744007078 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 582744007079 putative active site [active] 582744007080 putative metal binding site [ion binding]; other site 582744007081 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 582744007082 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 582744007083 phosphopeptide binding site; other site 582744007084 transcription antitermination factor NusB; Region: nusB; TIGR01951 582744007085 putative RNA binding site [nucleotide binding]; other site 582744007086 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 582744007087 homopentamer interface [polypeptide binding]; other site 582744007088 active site 582744007089 Major Facilitator Superfamily; Region: MFS_1; pfam07690 582744007090 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 582744007091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744007092 active site 582744007093 phosphorylation site [posttranslational modification] 582744007094 intermolecular recognition site; other site 582744007095 dimerization interface [polypeptide binding]; other site 582744007096 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 582744007097 DNA binding site [nucleotide binding] 582744007098 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 582744007099 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 582744007100 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 582744007101 putative active site [active] 582744007102 heme pocket [chemical binding]; other site 582744007103 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 582744007104 dimer interface [polypeptide binding]; other site 582744007105 phosphorylation site [posttranslational modification] 582744007106 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 582744007107 ATP binding site [chemical binding]; other site 582744007108 Mg2+ binding site [ion binding]; other site 582744007109 G-X-G motif; other site 582744007110 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 582744007111 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 582744007112 FAD binding domain; Region: FAD_binding_4; pfam01565 582744007113 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 582744007114 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 582744007115 Cysteine-rich domain; Region: CCG; pfam02754 582744007116 Cysteine-rich domain; Region: CCG; pfam02754 582744007117 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 582744007118 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 582744007119 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 582744007120 catalytic residues [active] 582744007121 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 582744007122 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 582744007123 putative hydrophobic ligand binding site [chemical binding]; other site 582744007124 protein interface [polypeptide binding]; other site 582744007125 gate; other site 582744007126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744007127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744007128 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 582744007129 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 582744007130 substrate binding site [chemical binding]; other site 582744007131 ATP binding site [chemical binding]; other site 582744007132 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 582744007133 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 582744007134 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 582744007135 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 582744007136 putative acyl-acceptor binding pocket; other site 582744007137 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 582744007138 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 582744007139 active site 582744007140 metal binding site [ion binding]; metal-binding site 582744007141 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 582744007142 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 582744007143 Sulfatase; Region: Sulfatase; cl17466 582744007144 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 582744007145 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 582744007146 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 582744007147 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 582744007148 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...; Region: LT_GEWL; cd00254 582744007149 N-acetyl-D-glucosamine binding site [chemical binding]; other site 582744007150 catalytic residue [active] 582744007151 prolyl-tRNA synthetase; Provisional; Region: PRK09194 582744007152 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...; Region: ProRS_core_prok; cd00779 582744007153 dimer interface [polypeptide binding]; other site 582744007154 motif 1; other site 582744007155 active site 582744007156 motif 2; other site 582744007157 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 582744007158 putative deacylase active site [active] 582744007159 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 582744007160 active site 582744007161 motif 3; other site 582744007162 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 582744007163 anticodon binding site; other site 582744007164 Repair protein; Region: Repair_PSII; pfam04536 582744007165 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 582744007166 Repair protein; Region: Repair_PSII; pfam04536 582744007167 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 582744007168 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 582744007169 Fe-S cluster binding site [ion binding]; other site 582744007170 active site 582744007171 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 582744007172 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744007173 Coenzyme A binding pocket [chemical binding]; other site 582744007174 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 582744007175 Glycoprotease family; Region: Peptidase_M22; pfam00814 582744007176 hypothetical protein; Provisional; Region: PRK09256 582744007177 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 582744007178 protein structure with unknown function; Region: DUF4144; pfam13642 582744007179 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 582744007180 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 582744007181 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 582744007182 EamA-like transporter family; Region: EamA; pfam00892 582744007183 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 582744007184 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 582744007185 ring oligomerisation interface [polypeptide binding]; other site 582744007186 ATP/Mg binding site [chemical binding]; other site 582744007187 stacking interactions; other site 582744007188 hinge regions; other site 582744007189 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 582744007190 oligomerisation interface [polypeptide binding]; other site 582744007191 mobile loop; other site 582744007192 roof hairpin; other site 582744007193 Domain of unknown function (DUF202); Region: DUF202; pfam02656 582744007194 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 582744007195 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 582744007196 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 582744007197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744007198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744007199 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 582744007200 putative effector binding pocket; other site 582744007201 dimerization interface [polypeptide binding]; other site 582744007202 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 582744007203 DEAD/DEAH box helicase; Region: DEAD; pfam00270 582744007204 DEAD_2; Region: DEAD_2; pfam06733 582744007205 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 582744007206 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 582744007207 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 582744007208 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 582744007209 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 582744007210 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 582744007211 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 582744007212 active site 582744007213 catalytic tetrad [active] 582744007214 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 582744007215 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 582744007216 heme-binding site [chemical binding]; other site 582744007217 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 582744007218 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 582744007219 dimerization interface [polypeptide binding]; other site 582744007220 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744007221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744007222 metal binding site [ion binding]; metal-binding site 582744007223 active site 582744007224 I-site; other site 582744007225 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 582744007226 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 582744007227 active site 582744007228 substrate binding pocket [chemical binding]; other site 582744007229 dimer interface [polypeptide binding]; other site 582744007230 Predicted methyltransferases [General function prediction only]; Region: COG0313 582744007231 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 582744007232 putative SAM binding site [chemical binding]; other site 582744007233 putative homodimer interface [polypeptide binding]; other site 582744007234 LppC putative lipoprotein; Region: LppC; pfam04348 582744007235 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 582744007236 putative ligand binding site [chemical binding]; other site 582744007237 hypothetical protein; Reviewed; Region: PRK12497 582744007238 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 582744007239 dimer interface [polypeptide binding]; other site 582744007240 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 582744007241 active site 582744007242 BON domain; Region: BON; pfam04972 582744007243 bacterial OsmY and nodulation domain; Region: BON; smart00749 582744007244 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 582744007245 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 582744007246 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 582744007247 catalytic residues [active] 582744007248 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 582744007249 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 582744007250 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 582744007251 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 582744007252 catalytic residues [active] 582744007253 transcription termination factor Rho; Provisional; Region: rho; PRK09376 582744007254 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 582744007255 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 582744007256 RNA binding site [nucleotide binding]; other site 582744007257 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 582744007258 multimer interface [polypeptide binding]; other site 582744007259 Walker A motif; other site 582744007260 ATP binding site [chemical binding]; other site 582744007261 Walker B motif; other site 582744007262 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 582744007263 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 582744007264 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 582744007265 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 582744007266 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744007267 Walker A/P-loop; other site 582744007268 ATP binding site [chemical binding]; other site 582744007269 Q-loop/lid; other site 582744007270 ABC transporter signature motif; other site 582744007271 Walker B; other site 582744007272 D-loop; other site 582744007273 H-loop/switch region; other site 582744007274 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 582744007275 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 582744007276 dimer interface [polypeptide binding]; other site 582744007277 conserved gate region; other site 582744007278 putative PBP binding loops; other site 582744007279 ABC-ATPase subunit interface; other site 582744007280 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 582744007281 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 582744007282 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 582744007283 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 582744007284 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 582744007285 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 582744007286 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 582744007287 FeS/SAM binding site; other site 582744007288 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 582744007289 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 582744007290 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 582744007291 GTP binding site; other site 582744007292 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 582744007293 Walker A motif; other site 582744007294 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 582744007295 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 582744007296 dimer interface [polypeptide binding]; other site 582744007297 putative functional site; other site 582744007298 putative MPT binding site; other site 582744007299 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 582744007300 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 582744007301 dimer interface [polypeptide binding]; other site 582744007302 putative metal binding site [ion binding]; other site 582744007303 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 582744007304 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 582744007305 N-terminal plug; other site 582744007306 ligand-binding site [chemical binding]; other site 582744007307 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 582744007308 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 582744007309 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 582744007310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 582744007311 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 582744007312 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744007313 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 582744007314 dimerization interface [polypeptide binding]; other site 582744007315 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 582744007316 dimer interface [polypeptide binding]; other site 582744007317 phosphorylation site [posttranslational modification] 582744007318 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 582744007319 ATP binding site [chemical binding]; other site 582744007320 G-X-G motif; other site 582744007321 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 582744007322 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 582744007323 catalytic triad [active] 582744007324 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 582744007325 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 582744007326 putative active site [active] 582744007327 PhoH-like protein; Region: PhoH; pfam02562 582744007328 lysophospholipid transporter LplT; Provisional; Region: PRK11195 582744007329 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 582744007330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 582744007331 Cytochrome c; Region: Cytochrom_C; cl11414 582744007332 Cytochrome c; Region: Cytochrom_C; cl11414 582744007333 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 582744007334 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 582744007335 substrate binding pocket [chemical binding]; other site 582744007336 membrane-bound complex binding site; other site 582744007337 hinge residues; other site 582744007338 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 582744007339 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 582744007340 Trp docking motif [polypeptide binding]; other site 582744007341 dimer interface [polypeptide binding]; other site 582744007342 active site 582744007343 small subunit binding site [polypeptide binding]; other site 582744007344 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 582744007345 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 582744007346 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 582744007347 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 582744007348 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 582744007349 ligand binding site [chemical binding]; other site 582744007350 flexible hinge region; other site 582744007351 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 582744007352 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 582744007353 active site residue [active] 582744007354 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 582744007355 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 582744007356 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 582744007357 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 582744007358 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 582744007359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744007360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744007361 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 582744007362 putative effector binding pocket; other site 582744007363 dimerization interface [polypeptide binding]; other site 582744007364 short chain dehydrogenase; Provisional; Region: PRK06500 582744007365 classical (c) SDRs; Region: SDR_c; cd05233 582744007366 NAD(P) binding site [chemical binding]; other site 582744007367 active site 582744007368 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 582744007369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 582744007370 NAD(P) binding site [chemical binding]; other site 582744007371 active site 582744007372 chromosome segregation protein; Provisional; Region: PRK03918 582744007373 Fic family protein [Function unknown]; Region: COG3177 582744007374 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 582744007375 Fic/DOC family; Region: Fic; pfam02661 582744007376 NACHT domain; Region: NACHT; pfam05729 582744007377 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 582744007378 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 582744007379 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 582744007380 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 582744007381 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 582744007382 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 582744007383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 582744007384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744007385 active site 582744007386 phosphorylation site [posttranslational modification] 582744007387 intermolecular recognition site; other site 582744007388 dimerization interface [polypeptide binding]; other site 582744007389 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 582744007390 DNA binding site [nucleotide binding] 582744007391 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 582744007392 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 582744007393 dimer interface [polypeptide binding]; other site 582744007394 phosphorylation site [posttranslational modification] 582744007395 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 582744007396 ATP binding site [chemical binding]; other site 582744007397 Mg2+ binding site [ion binding]; other site 582744007398 G-X-G motif; other site 582744007399 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 582744007400 addiction module antidote protein, HigA family; Region: antidote_HigA; TIGR02607 582744007401 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 582744007402 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 582744007403 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 582744007404 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 582744007405 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 582744007406 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 582744007407 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 582744007408 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744007409 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 582744007410 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 582744007411 DNA binding residues [nucleotide binding] 582744007412 DNA primase; Validated; Region: dnaG; PRK05667 582744007413 CHC2 zinc finger; Region: zf-CHC2; pfam01807 582744007414 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 582744007415 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 582744007416 active site 582744007417 metal binding site [ion binding]; metal-binding site 582744007418 interdomain interaction site; other site 582744007419 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 582744007420 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 582744007421 Yqey-like protein; Region: YqeY; pfam09424 582744007422 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 582744007423 UGMP family protein; Validated; Region: PRK09604 582744007424 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 582744007425 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 582744007426 Dihydroneopterin aldolase; Region: FolB; smart00905 582744007427 active site 582744007428 TIGR03790 family protein; Region: TIGR03790 582744007429 hypothetical protein; Provisional; Region: PRK04233 582744007430 SEC-C motif; Region: SEC-C; pfam02810 582744007431 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 582744007432 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 582744007433 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 582744007434 active site 582744007435 Int/Topo IB signature motif; other site 582744007436 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 582744007437 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 582744007438 DNA binding site [nucleotide binding] 582744007439 active site 582744007440 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 582744007441 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 582744007442 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 582744007443 RimM N-terminal domain; Region: RimM; pfam01782 582744007444 PRC-barrel domain; Region: PRC; pfam05239 582744007445 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 582744007446 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 582744007447 Ligand Binding Site [chemical binding]; other site 582744007448 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 582744007449 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 582744007450 FeS/SAM binding site; other site 582744007451 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 582744007452 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 582744007453 TPR motif; other site 582744007454 binding surface 582744007455 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 582744007456 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 582744007457 ligand binding site [chemical binding]; other site 582744007458 TolB amino-terminal domain; Region: TolB_N; pfam04052 582744007459 translocation protein TolB; Provisional; Region: tolB; PRK02889 582744007460 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 582744007461 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 582744007462 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 582744007463 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 582744007464 TonB C terminal; Region: TonB_2; pfam13103 582744007465 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 582744007466 TolR protein; Region: tolR; TIGR02801 582744007467 TolQ protein; Region: tolQ; TIGR02796 582744007468 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 582744007469 active site 582744007470 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 582744007471 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 582744007472 Walker A motif; other site 582744007473 ATP binding site [chemical binding]; other site 582744007474 Walker B motif; other site 582744007475 arginine finger; other site 582744007476 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 582744007477 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 582744007478 RuvA N terminal domain; Region: RuvA_N; pfam01330 582744007479 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 582744007480 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...; Region: RuvC_resolvase; cd00529 582744007481 active site 582744007482 putative DNA-binding cleft [nucleotide binding]; other site 582744007483 dimer interface [polypeptide binding]; other site 582744007484 hypothetical protein; Validated; Region: PRK00110 582744007485 EamA-like transporter family; Region: EamA; pfam00892 582744007486 EamA-like transporter family; Region: EamA; pfam00892 582744007487 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 582744007488 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 582744007489 MarR family; Region: MarR_2; cl17246 582744007490 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 582744007491 FOG: CBS domain [General function prediction only]; Region: COG0517 582744007492 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 582744007493 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 582744007494 TrkA-N domain; Region: TrkA_N; pfam02254 582744007495 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 582744007496 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 582744007497 Uncharacterized conserved protein [Function unknown]; Region: COG0432 582744007498 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 582744007499 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 582744007500 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 582744007501 catalytic triad [active] 582744007502 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 582744007503 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 582744007504 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 582744007505 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 582744007506 Transglutaminase/protease-like homologues; Region: TGc; smart00460 582744007507 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 582744007508 binding surface 582744007509 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744007510 TPR motif; other site 582744007511 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 582744007512 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 582744007513 active site 582744007514 FMN binding site [chemical binding]; other site 582744007515 substrate binding site [chemical binding]; other site 582744007516 3Fe-4S cluster binding site [ion binding]; other site 582744007517 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 582744007518 domain_subunit interface; other site 582744007519 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 582744007520 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 582744007521 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 582744007522 putative active site [active] 582744007523 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 582744007524 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 582744007525 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 582744007526 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 582744007527 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 582744007528 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 582744007529 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 582744007530 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 582744007531 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 582744007532 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 582744007533 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 582744007534 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 582744007535 hydroxyglutarate oxidase; Provisional; Region: PRK11728 582744007536 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 582744007537 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 582744007538 non-specific DNA binding site [nucleotide binding]; other site 582744007539 salt bridge; other site 582744007540 sequence-specific DNA binding site [nucleotide binding]; other site 582744007541 Cupin domain; Region: Cupin_2; pfam07883 582744007542 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 582744007543 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744007544 Coenzyme A binding pocket [chemical binding]; other site 582744007545 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 582744007546 Permease; Region: Permease; pfam02405 582744007547 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 582744007548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744007549 Walker A/P-loop; other site 582744007550 ATP binding site [chemical binding]; other site 582744007551 Q-loop/lid; other site 582744007552 ABC transporter signature motif; other site 582744007553 Walker B; other site 582744007554 D-loop; other site 582744007555 H-loop/switch region; other site 582744007556 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 582744007557 mce related protein; Region: MCE; pfam02470 582744007558 Protein of unknown function (DUF330); Region: DUF330; cl01135 582744007559 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 582744007560 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 582744007561 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 582744007562 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 582744007563 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 582744007564 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 582744007565 putative active site [active] 582744007566 putative active site [active] 582744007567 catalytic site [active] 582744007568 catalytic site [active] 582744007569 CCC1-related family of proteins; Region: CCC1_like; cl00278 582744007570 PAS fold; Region: PAS; pfam00989 582744007571 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 582744007572 putative active site [active] 582744007573 heme pocket [chemical binding]; other site 582744007574 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744007575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744007576 metal binding site [ion binding]; metal-binding site 582744007577 active site 582744007578 I-site; other site 582744007579 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 582744007580 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 582744007581 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 582744007582 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 582744007583 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 582744007584 putative active site [active] 582744007585 putative metal binding site [ion binding]; other site 582744007586 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 582744007587 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 582744007588 active site 582744007589 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 582744007590 GAF domain; Region: GAF; pfam01590 582744007591 PAS domain S-box; Region: sensory_box; TIGR00229 582744007592 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 582744007593 putative active site [active] 582744007594 heme pocket [chemical binding]; other site 582744007595 PAS domain S-box; Region: sensory_box; TIGR00229 582744007596 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 582744007597 putative active site [active] 582744007598 heme pocket [chemical binding]; other site 582744007599 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744007600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744007601 metal binding site [ion binding]; metal-binding site 582744007602 active site 582744007603 I-site; other site 582744007604 PEP-CTERM motif; Region: VPEP; pfam07589 582744007605 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 582744007606 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 582744007607 RDD family; Region: RDD; pfam06271 582744007608 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 582744007609 putative active site [active] 582744007610 catalytic site [active] 582744007611 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 582744007612 putative active site [active] 582744007613 catalytic site [active] 582744007614 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 582744007615 putative catalytic site [active] 582744007616 putative metal binding site [ion binding]; other site 582744007617 putative phosphate binding site [ion binding]; other site 582744007618 quinolinate synthetase; Provisional; Region: PRK09375 582744007619 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 582744007620 nudix motif; other site 582744007621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 582744007622 active site 582744007623 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 582744007624 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 582744007625 dimer interface [polypeptide binding]; other site 582744007626 anticodon binding site; other site 582744007627 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...; Region: AspRS_core; cd00777 582744007628 homodimer interface [polypeptide binding]; other site 582744007629 motif 1; other site 582744007630 active site 582744007631 motif 2; other site 582744007632 GAD domain; Region: GAD; pfam02938 582744007633 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...; Region: AspRS_core; cd00777 582744007634 motif 3; other site 582744007635 Uncharacterized conserved protein [Function unknown]; Region: COG2928 582744007636 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 582744007637 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 582744007638 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 582744007639 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 582744007640 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 582744007641 Ligand binding site [chemical binding]; other site 582744007642 Electron transfer flavoprotein domain; Region: ETF; pfam01012 582744007643 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 582744007644 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 582744007645 4Fe-4S binding domain; Region: Fer4; pfam00037 582744007646 Cysteine-rich domain; Region: CCG; pfam02754 582744007647 Cysteine-rich domain; Region: CCG; pfam02754 582744007648 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 582744007649 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 582744007650 FMN binding site [chemical binding]; other site 582744007651 active site 582744007652 homodimer interface [polypeptide binding]; other site 582744007653 putative catalytic residue [active] 582744007654 4Fe-4S cluster binding site [ion binding]; other site 582744007655 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 582744007656 Amino acid permease; Region: AA_permease_2; pfam13520 582744007657 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 582744007658 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 582744007659 transcriptional regulator NarL; Provisional; Region: PRK10651 582744007660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744007661 active site 582744007662 phosphorylation site [posttranslational modification] 582744007663 intermolecular recognition site; other site 582744007664 dimerization interface [polypeptide binding]; other site 582744007665 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 582744007666 DNA binding residues [nucleotide binding] 582744007667 dimerization interface [polypeptide binding]; other site 582744007668 Histidine kinase; Region: HisKA_3; pfam07730 582744007669 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 582744007670 ATP binding site [chemical binding]; other site 582744007671 Mg2+ binding site [ion binding]; other site 582744007672 G-X-G motif; other site 582744007673 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 582744007674 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 582744007675 putative active site [active] 582744007676 heme pocket [chemical binding]; other site 582744007677 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 582744007678 putative active site [active] 582744007679 heme pocket [chemical binding]; other site 582744007680 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 582744007681 PAS fold; Region: PAS_3; pfam08447 582744007682 putative active site [active] 582744007683 heme pocket [chemical binding]; other site 582744007684 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 582744007685 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 582744007686 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 582744007687 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 582744007688 FMN-binding pocket [chemical binding]; other site 582744007689 flavin binding motif; other site 582744007690 phosphate binding motif [ion binding]; other site 582744007691 beta-alpha-beta structure motif; other site 582744007692 NAD binding pocket [chemical binding]; other site 582744007693 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 582744007694 catalytic loop [active] 582744007695 iron binding site [ion binding]; other site 582744007696 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 582744007697 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 582744007698 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 582744007699 NMT1/THI5 like; Region: NMT1; pfam09084 582744007700 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; cl17432 582744007701 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 582744007702 PAS fold; Region: PAS_3; pfam08447 582744007703 putative active site [active] 582744007704 heme pocket [chemical binding]; other site 582744007705 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744007706 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744007707 metal binding site [ion binding]; metal-binding site 582744007708 active site 582744007709 I-site; other site 582744007710 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 582744007711 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 582744007712 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 582744007713 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 582744007714 dimer interface [polypeptide binding]; other site 582744007715 phosphorylation site [posttranslational modification] 582744007716 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 582744007717 ATP binding site [chemical binding]; other site 582744007718 Mg2+ binding site [ion binding]; other site 582744007719 G-X-G motif; other site 582744007720 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 582744007721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744007722 active site 582744007723 phosphorylation site [posttranslational modification] 582744007724 intermolecular recognition site; other site 582744007725 dimerization interface [polypeptide binding]; other site 582744007726 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 582744007727 DNA binding site [nucleotide binding] 582744007728 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 582744007729 putative hydrophobic ligand binding site [chemical binding]; other site 582744007730 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 582744007731 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744007732 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744007733 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 582744007734 putative effector binding pocket; other site 582744007735 putative dimerization interface [polypeptide binding]; other site 582744007736 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 582744007737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 582744007738 NAD(P) binding site [chemical binding]; other site 582744007739 active site 582744007740 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; cd00312 582744007741 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 582744007742 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 582744007743 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744007744 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744007745 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 582744007746 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 582744007747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744007748 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 582744007749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744007750 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 582744007751 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 582744007752 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 582744007753 dimer interface [polypeptide binding]; other site 582744007754 ssDNA binding site [nucleotide binding]; other site 582744007755 tetramer (dimer of dimers) interface [polypeptide binding]; other site 582744007756 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744007757 Major Facilitator Superfamily; Region: MFS_1; pfam07690 582744007758 putative substrate translocation pore; other site 582744007759 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 582744007760 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 582744007761 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 582744007762 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 582744007763 HDOD domain; Region: HDOD; pfam08668 582744007764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 582744007765 Transglycosylase; Region: Transgly; cl17702 582744007766 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 582744007767 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 582744007768 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 582744007769 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 582744007770 shikimate binding site; other site 582744007771 NAD(P) binding site [chemical binding]; other site 582744007772 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 582744007773 active site residue [active] 582744007774 glutamine synthetase; Provisional; Region: glnA; PRK09469 582744007775 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 582744007776 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 582744007777 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 582744007778 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 582744007779 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 582744007780 putative active site [active] 582744007781 heme pocket [chemical binding]; other site 582744007782 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 582744007783 dimer interface [polypeptide binding]; other site 582744007784 phosphorylation site [posttranslational modification] 582744007785 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 582744007786 ATP binding site [chemical binding]; other site 582744007787 Mg2+ binding site [ion binding]; other site 582744007788 G-X-G motif; other site 582744007789 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 582744007790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744007791 active site 582744007792 phosphorylation site [posttranslational modification] 582744007793 intermolecular recognition site; other site 582744007794 dimerization interface [polypeptide binding]; other site 582744007795 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 582744007796 Walker A motif; other site 582744007797 ATP binding site [chemical binding]; other site 582744007798 Walker B motif; other site 582744007799 arginine finger; other site 582744007800 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744007801 TPR repeat; Region: TPR_11; pfam13414 582744007802 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 582744007803 binding surface 582744007804 TPR motif; other site 582744007805 TPR repeat; Region: TPR_11; pfam13414 582744007806 Methyltransferase domain; Region: Methyltransf_24; pfam13578 582744007807 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 582744007808 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 582744007809 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 582744007810 Zn2+ binding site [ion binding]; other site 582744007811 Mg2+ binding site [ion binding]; other site 582744007812 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 582744007813 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 582744007814 active site 582744007815 dimer interface [polypeptide binding]; other site 582744007816 metal binding site [ion binding]; metal-binding site 582744007817 shikimate kinase; Reviewed; Region: aroK; PRK00131 582744007818 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 582744007819 ADP binding site [chemical binding]; other site 582744007820 magnesium binding site [ion binding]; other site 582744007821 putative shikimate binding site; other site 582744007822 AMIN domain; Region: AMIN; pfam11741 582744007823 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 582744007824 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744007825 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 582744007826 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 582744007827 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 582744007828 Pilus assembly protein, PilP; Region: PilP; pfam04351 582744007829 Pilus assembly protein, PilO; Region: PilO; pfam04350 582744007830 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 582744007831 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 582744007832 Competence protein A; Region: Competence_A; pfam11104 582744007833 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 582744007834 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 582744007835 Transglycosylase; Region: Transgly; pfam00912 582744007836 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 582744007837 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 582744007838 dimer interface [polypeptide binding]; other site 582744007839 allosteric magnesium binding site [ion binding]; other site 582744007840 active site 582744007841 aspartate-rich active site metal binding site; other site 582744007842 Schiff base residues; other site 582744007843 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 582744007844 active site 582744007845 ribulose/triose binding site [chemical binding]; other site 582744007846 phosphate binding site [ion binding]; other site 582744007847 substrate (anthranilate) binding pocket [chemical binding]; other site 582744007848 product (indole) binding pocket [chemical binding]; other site 582744007849 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 582744007850 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 582744007851 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 582744007852 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 582744007853 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 582744007854 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 582744007855 glutamine binding [chemical binding]; other site 582744007856 catalytic triad [active] 582744007857 anthranilate synthase component I; Provisional; Region: PRK13565 582744007858 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 582744007859 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 582744007860 phosphoglycolate phosphatase; Provisional; Region: PRK13222 582744007861 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 582744007862 motif II; other site 582744007863 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 582744007864 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 582744007865 substrate binding site [chemical binding]; other site 582744007866 hexamer interface [polypeptide binding]; other site 582744007867 metal binding site [ion binding]; metal-binding site 582744007868 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 582744007869 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 582744007870 tRNA; other site 582744007871 putative tRNA binding site [nucleotide binding]; other site 582744007872 putative NADP binding site [chemical binding]; other site 582744007873 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 582744007874 peptide chain release factor 1; Validated; Region: prfA; PRK00591 582744007875 This domain is found in peptide chain release factors; Region: PCRF; smart00937 582744007876 RF-1 domain; Region: RF-1; pfam00472 582744007877 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 582744007878 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 582744007879 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 582744007880 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 582744007881 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 582744007882 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 582744007883 trimer interface [polypeptide binding]; other site 582744007884 putative metal binding site [ion binding]; other site 582744007885 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 582744007886 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 582744007887 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; cl17173 582744007888 Family description; Region: DsbD_2; pfam13386 582744007889 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744007890 muropeptide transporter; Reviewed; Region: ampG; PRK11902 582744007891 putative substrate translocation pore; other site 582744007892 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 582744007893 putative active site [active] 582744007894 putative catalytic site [active] 582744007895 putative DNA binding site [nucleotide binding]; other site 582744007896 putative phosphate binding site [ion binding]; other site 582744007897 metal binding site A [ion binding]; metal-binding site 582744007898 putative AP binding site [nucleotide binding]; other site 582744007899 putative metal binding site B [ion binding]; other site 582744007900 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 582744007901 active site 582744007902 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 582744007903 putative active site [active] 582744007904 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 582744007905 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 582744007906 GatB domain; Region: GatB_Yqey; smart00845 582744007907 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 582744007908 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 582744007909 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 582744007910 rod shape-determining protein MreB; Provisional; Region: PRK13927 582744007911 MreB and similar proteins; Region: MreB_like; cd10225 582744007912 nucleotide binding site [chemical binding]; other site 582744007913 Mg binding site [ion binding]; other site 582744007914 putative protofilament interaction site [polypeptide binding]; other site 582744007915 RodZ interaction site [polypeptide binding]; other site 582744007916 rod shape-determining protein MreC; Provisional; Region: PRK13922 582744007917 rod shape-determining protein MreC; Region: MreC; pfam04085 582744007918 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 582744007919 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 582744007920 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 582744007921 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 582744007922 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 582744007923 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 582744007924 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 582744007925 Sporulation related domain; Region: SPOR; pfam05036 582744007926 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 582744007927 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 582744007928 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 582744007929 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 582744007930 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 582744007931 homodimer interface [polypeptide binding]; other site 582744007932 substrate-cofactor binding pocket; other site 582744007933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744007934 catalytic residue [active] 582744007935 Protein of unknown function (DUF493); Region: DUF493; cl01102 582744007936 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 582744007937 lipoyl synthase; Provisional; Region: PRK05481 582744007938 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 582744007939 FeS/SAM binding site; other site 582744007940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 582744007941 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 582744007942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 582744007943 DNA-binding site [nucleotide binding]; DNA binding site 582744007944 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 582744007945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744007946 homodimer interface [polypeptide binding]; other site 582744007947 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 582744007948 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 582744007949 Trp docking motif [polypeptide binding]; other site 582744007950 dimer interface [polypeptide binding]; other site 582744007951 active site 582744007952 small subunit binding site [polypeptide binding]; other site 582744007953 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 582744007954 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 582744007955 ATP-grasp domain; Region: ATP-grasp_4; cl17255 582744007956 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 582744007957 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 582744007958 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 582744007959 S-adenosylmethionine binding site [chemical binding]; other site 582744007960 CopC domain; Region: CopC; pfam04234 582744007961 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 582744007962 Cytochrome c; Region: Cytochrom_C; pfam00034 582744007963 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 582744007964 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 582744007965 Low-spin heme binding site [chemical binding]; other site 582744007966 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 582744007967 D-pathway; other site 582744007968 Putative water exit pathway; other site 582744007969 Binuclear center (active site) [active] 582744007970 K-pathway; other site 582744007971 Putative proton exit pathway; other site 582744007972 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 582744007973 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 582744007974 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 582744007975 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 582744007976 active site 582744007977 homodimer interface [polypeptide binding]; other site 582744007978 catalytic site [active] 582744007979 acceptor binding site [chemical binding]; other site 582744007980 trehalose synthase; Region: treS_nterm; TIGR02456 582744007981 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 582744007982 active site 582744007983 catalytic site [active] 582744007984 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 582744007985 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 582744007986 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 582744007987 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 582744007988 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 582744007989 catalytic site [active] 582744007990 active site 582744007991 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 582744007992 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 582744007993 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 582744007994 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 582744007995 active site 582744007996 catalytic site [active] 582744007997 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 582744007998 Hemerythrin-like domain; Region: Hr-like; cd12108 582744007999 Fe binding site [ion binding]; other site 582744008000 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 582744008001 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 582744008002 putative DNA binding site [nucleotide binding]; other site 582744008003 putative homodimer interface [polypeptide binding]; other site 582744008004 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 582744008005 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 582744008006 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 582744008007 active site 582744008008 DNA binding site [nucleotide binding] 582744008009 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 582744008010 DNA binding site [nucleotide binding] 582744008011 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 582744008012 nucleotide binding site [chemical binding]; other site 582744008013 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 582744008014 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 582744008015 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 582744008016 nucleotide binding site/active site [active] 582744008017 HIT family signature motif; other site 582744008018 catalytic residue [active] 582744008019 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 582744008020 dimer interface [polypeptide binding]; other site 582744008021 [2Fe-2S] cluster binding site [ion binding]; other site 582744008022 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 582744008023 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 582744008024 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 582744008025 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 582744008026 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 582744008027 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 582744008028 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 582744008029 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 582744008030 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 582744008031 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 582744008032 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 582744008033 substrate binding pocket [chemical binding]; other site 582744008034 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 582744008035 B12 binding site [chemical binding]; other site 582744008036 cobalt ligand [ion binding]; other site 582744008037 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 582744008038 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 582744008039 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 582744008040 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 582744008041 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 582744008042 Walker A motif; other site 582744008043 ATP binding site [chemical binding]; other site 582744008044 Walker B motif; other site 582744008045 arginine finger; other site 582744008046 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 582744008047 Membrane fusogenic activity; Region: BMFP; pfam04380 582744008048 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 582744008049 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 582744008050 Nitrogen regulatory protein P-II; Region: P-II; smart00938 582744008051 ammonium transporter; Provisional; Region: PRK10666 582744008052 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 582744008053 Glutamate-cysteine ligase; Region: GshA; pfam08886 582744008054 glutathione synthetase; Provisional; Region: PRK05246 582744008055 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 582744008056 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 582744008057 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 582744008058 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 582744008059 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 582744008060 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 582744008061 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 582744008062 Type II transport protein GspH; Region: GspH; pfam12019 582744008063 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 582744008064 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 582744008065 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 582744008066 diaminopimelate decarboxylase; Region: lysA; TIGR01048 582744008067 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 582744008068 active site 582744008069 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 582744008070 substrate binding site [chemical binding]; other site 582744008071 catalytic residues [active] 582744008072 dimer interface [polypeptide binding]; other site 582744008073 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 582744008074 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 582744008075 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 582744008076 putative active site [active] 582744008077 putative substrate binding site [chemical binding]; other site 582744008078 putative cosubstrate binding site; other site 582744008079 catalytic site [active] 582744008080 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 582744008081 CobD/Cbib protein; Region: CobD_Cbib; cl00561 582744008082 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 582744008083 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 582744008084 Predicted membrane protein [Function unknown]; Region: COG2259 582744008085 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 582744008086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 582744008087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 582744008088 Coenzyme A binding pocket [chemical binding]; other site 582744008089 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 582744008090 putative transporter; Provisional; Region: PRK11660 582744008091 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 582744008092 Sulfate transporter family; Region: Sulfate_transp; pfam00916 582744008093 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 582744008094 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 582744008095 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 582744008096 minor groove reading motif; other site 582744008097 helix-hairpin-helix signature motif; other site 582744008098 substrate binding pocket [chemical binding]; other site 582744008099 active site 582744008100 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 582744008101 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 582744008102 DNA binding and oxoG recognition site [nucleotide binding] 582744008103 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 582744008104 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 582744008105 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 582744008106 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 582744008107 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 582744008108 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 582744008109 RNA binding surface [nucleotide binding]; other site 582744008110 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 582744008111 active site 582744008112 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 582744008113 ThiC-associated domain; Region: ThiC-associated; pfam13667 582744008114 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 582744008115 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 582744008116 TPR motif; other site 582744008117 binding surface 582744008118 short chain dehydrogenase; Provisional; Region: PRK09072 582744008119 classical (c) SDRs; Region: SDR_c; cd05233 582744008120 NAD(P) binding site [chemical binding]; other site 582744008121 active site 582744008122 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 582744008123 heme binding pocket [chemical binding]; other site 582744008124 heme ligand [chemical binding]; other site 582744008125 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 582744008126 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 582744008127 acyl-activating enzyme (AAE) consensus motif; other site 582744008128 putative AMP binding site [chemical binding]; other site 582744008129 putative active site [active] 582744008130 putative CoA binding site [chemical binding]; other site 582744008131 Thermostable hemolysin; Region: T_hemolysin; pfam12261 582744008132 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 582744008133 dimer interface [polypeptide binding]; other site 582744008134 phosphorylation site [posttranslational modification] 582744008135 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 582744008136 ATP binding site [chemical binding]; other site 582744008137 Mg2+ binding site [ion binding]; other site 582744008138 G-X-G motif; other site 582744008139 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 582744008140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744008141 active site 582744008142 phosphorylation site [posttranslational modification] 582744008143 intermolecular recognition site; other site 582744008144 dimerization interface [polypeptide binding]; other site 582744008145 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 582744008146 Walker A motif; other site 582744008147 ATP binding site [chemical binding]; other site 582744008148 Walker B motif; other site 582744008149 arginine finger; other site 582744008150 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 582744008151 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 582744008152 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 582744008153 S-adenosylmethionine binding site [chemical binding]; other site 582744008154 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 582744008155 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 582744008156 Isochorismatase family; Region: Isochorismatase; pfam00857 582744008157 catalytic triad [active] 582744008158 dimer interface [polypeptide binding]; other site 582744008159 conserved cis-peptide bond; other site 582744008160 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744008161 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744008162 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 582744008163 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 582744008164 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 582744008165 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 582744008166 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 582744008167 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 582744008168 active site 582744008169 dimer interface [polypeptide binding]; other site 582744008170 effector binding site; other site 582744008171 TSCPD domain; Region: TSCPD; pfam12637 582744008172 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 582744008173 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 582744008174 active site 582744008175 nucleophile elbow; other site 582744008176 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 582744008177 active site 582744008178 NTP binding site [chemical binding]; other site 582744008179 metal binding triad [ion binding]; metal-binding site 582744008180 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 582744008181 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 582744008182 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 582744008183 dimer interface [polypeptide binding]; other site 582744008184 conserved gate region; other site 582744008185 putative PBP binding loops; other site 582744008186 ABC-ATPase subunit interface; other site 582744008187 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 582744008188 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 582744008189 substrate binding pocket [chemical binding]; other site 582744008190 membrane-bound complex binding site; other site 582744008191 hinge residues; other site 582744008192 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 582744008193 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 582744008194 Walker A/P-loop; other site 582744008195 ATP binding site [chemical binding]; other site 582744008196 Q-loop/lid; other site 582744008197 ABC transporter signature motif; other site 582744008198 Walker B; other site 582744008199 D-loop; other site 582744008200 H-loop/switch region; other site 582744008201 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 582744008202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 582744008203 DNA-binding site [nucleotide binding]; DNA binding site 582744008204 UTRA domain; Region: UTRA; pfam07702 582744008205 Cupin; Region: Cupin_6; pfam12852 582744008206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744008207 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 582744008208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744008209 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 582744008210 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 582744008211 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 582744008212 Acyl transferase domain; Region: Acyl_transf_1; cl08282 582744008213 EamA-like transporter family; Region: EamA; pfam00892 582744008214 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 582744008215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744008216 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 582744008217 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 582744008218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744008219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744008220 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_2; cd08471 582744008221 putative effector binding pocket; other site 582744008222 putative dimerization interface [polypeptide binding]; other site 582744008223 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 582744008224 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 582744008225 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 582744008226 DNA-binding site [nucleotide binding]; DNA binding site 582744008227 RNA-binding motif; other site 582744008228 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 582744008229 BON domain; Region: BON; pfam04972 582744008230 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 582744008231 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 582744008232 YqjK-like protein; Region: YqjK; pfam13997 582744008233 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 582744008234 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 582744008235 ligand binding site [chemical binding]; other site 582744008236 flexible hinge region; other site 582744008237 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 582744008238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744008239 active site 582744008240 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 582744008241 phosphorylation site [posttranslational modification] 582744008242 intermolecular recognition site; other site 582744008243 dimerization interface [polypeptide binding]; other site 582744008244 PAS fold; Region: PAS; pfam00989 582744008245 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 582744008246 putative active site [active] 582744008247 heme pocket [chemical binding]; other site 582744008248 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008250 metal binding site [ion binding]; metal-binding site 582744008251 active site 582744008252 I-site; other site 582744008253 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 582744008254 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 582744008255 ligand binding site [chemical binding]; other site 582744008256 flexible hinge region; other site 582744008257 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 582744008258 non-specific DNA interactions [nucleotide binding]; other site 582744008259 DNA binding site [nucleotide binding] 582744008260 sequence specific DNA binding site [nucleotide binding]; other site 582744008261 putative cAMP binding site [chemical binding]; other site 582744008262 Putative glucoamylase; Region: Glycoamylase; pfam10091 582744008263 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 582744008264 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 582744008265 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 582744008266 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 582744008267 MarR family; Region: MarR_2; pfam12802 582744008268 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 582744008269 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 582744008270 FAD binding pocket [chemical binding]; other site 582744008271 FAD binding motif [chemical binding]; other site 582744008272 phosphate binding motif [ion binding]; other site 582744008273 NAD binding pocket [chemical binding]; other site 582744008274 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 582744008275 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 582744008276 putative active site [active] 582744008277 heme pocket [chemical binding]; other site 582744008278 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 582744008279 putative active site [active] 582744008280 heme pocket [chemical binding]; other site 582744008281 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008282 dimer interface [polypeptide binding]; other site 582744008283 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 582744008284 putative CheW interface [polypeptide binding]; other site 582744008285 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 582744008286 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 582744008287 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 582744008288 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 582744008289 DNA-binding site [nucleotide binding]; DNA binding site 582744008290 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 582744008291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744008292 homodimer interface [polypeptide binding]; other site 582744008293 catalytic residue [active] 582744008294 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 582744008295 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 582744008296 Protein export membrane protein; Region: SecD_SecF; cl14618 582744008297 Protein export membrane protein; Region: SecD_SecF; cl14618 582744008298 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 582744008299 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744008300 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744008301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744008302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744008303 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008305 metal binding site [ion binding]; metal-binding site 582744008306 active site 582744008307 I-site; other site 582744008308 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 582744008309 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 582744008310 putative heme binding pocket [chemical binding]; other site 582744008311 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 582744008312 MarR family; Region: MarR; pfam01047 582744008313 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 582744008314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744008315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744008316 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744008317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744008318 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 582744008319 dimerization interface [polypeptide binding]; other site 582744008320 Pirin-related protein [General function prediction only]; Region: COG1741 582744008321 Pirin; Region: Pirin; pfam02678 582744008322 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 582744008323 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 582744008324 NADP binding site [chemical binding]; other site 582744008325 Isochorismatase family; Region: Isochorismatase; pfam00857 582744008326 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 582744008327 catalytic triad [active] 582744008328 dimer interface [polypeptide binding]; other site 582744008329 conserved cis-peptide bond; other site 582744008330 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 582744008331 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 582744008332 active site 582744008333 Transmembrane secretion effector; Region: MFS_3; pfam05977 582744008334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744008335 putative substrate translocation pore; other site 582744008336 XapX domain; Region: XapX; TIGR03510 582744008337 Cytosol aminopeptidase family, N-terminal domain; Region: Peptidase_M17_N; pfam02789 582744008338 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 582744008339 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744008340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744008341 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 582744008342 putative effector binding pocket; other site 582744008343 dimerization interface [polypeptide binding]; other site 582744008344 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 582744008345 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 582744008346 MoxR-like ATPases [General function prediction only]; Region: COG0714 582744008347 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; cl17189 582744008348 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 582744008349 Protein of unknown function DUF58; Region: DUF58; pfam01882 582744008350 von Willebrand factor type A domain; Region: VWA_2; pfam13519 582744008351 metal ion-dependent adhesion site (MIDAS); other site 582744008352 von Willebrand factor type A domain; Region: VWA_2; pfam13519 582744008353 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 582744008354 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 582744008355 putative NAD(P) binding site [chemical binding]; other site 582744008356 dimer interface [polypeptide binding]; other site 582744008357 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744008358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744008359 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 582744008360 putative effector binding pocket; other site 582744008361 dimerization interface [polypeptide binding]; other site 582744008362 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 582744008363 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 582744008364 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 582744008365 PAS fold; Region: PAS_3; pfam08447 582744008366 putative active site [active] 582744008367 heme pocket [chemical binding]; other site 582744008368 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008369 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008370 metal binding site [ion binding]; metal-binding site 582744008371 active site 582744008372 I-site; other site 582744008373 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 582744008374 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 582744008375 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744008376 active site 582744008377 phosphorylation site [posttranslational modification] 582744008378 intermolecular recognition site; other site 582744008379 dimerization interface [polypeptide binding]; other site 582744008380 CheB methylesterase; Region: CheB_methylest; pfam01339 582744008381 CheD chemotactic sensory transduction; Region: CheD; cl00810 582744008382 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 582744008383 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 582744008384 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 582744008385 S-adenosylmethionine binding site [chemical binding]; other site 582744008386 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 582744008387 putative CheA interaction surface; other site 582744008388 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 582744008389 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008390 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008391 dimer interface [polypeptide binding]; other site 582744008392 putative CheW interface [polypeptide binding]; other site 582744008393 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 582744008394 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 582744008395 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 582744008396 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 582744008397 dimerization interface [polypeptide binding]; other site 582744008398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008399 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 582744008400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008401 dimer interface [polypeptide binding]; other site 582744008402 putative CheW interface [polypeptide binding]; other site 582744008403 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 582744008404 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 582744008405 putative CheA interaction surface; other site 582744008406 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 582744008407 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008408 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 582744008409 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008410 dimer interface [polypeptide binding]; other site 582744008411 putative CheW interface [polypeptide binding]; other site 582744008412 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 582744008413 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 582744008414 putative binding surface; other site 582744008415 active site 582744008416 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 582744008417 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 582744008418 ATP binding site [chemical binding]; other site 582744008419 Mg2+ binding site [ion binding]; other site 582744008420 G-X-G motif; other site 582744008421 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 582744008422 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 582744008423 anti sigma factor interaction site; other site 582744008424 regulatory phosphorylation site [posttranslational modification]; other site 582744008425 Response regulator receiver domain; Region: Response_reg; pfam00072 582744008426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 582744008427 active site 582744008428 phosphorylation site [posttranslational modification] 582744008429 intermolecular recognition site; other site 582744008430 dimerization interface [polypeptide binding]; other site 582744008431 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 582744008432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 582744008433 dimer interface [polypeptide binding]; other site 582744008434 putative CheW interface [polypeptide binding]; other site 582744008435 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 582744008436 multidrug efflux protein; Reviewed; Region: PRK09577 582744008437 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 582744008438 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 582744008439 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744008440 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 582744008441 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 582744008442 PAS domain S-box; Region: sensory_box; TIGR00229 582744008443 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 582744008444 putative active site [active] 582744008445 heme pocket [chemical binding]; other site 582744008446 PAS fold; Region: PAS_4; pfam08448 582744008447 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 582744008448 putative active site [active] 582744008449 heme pocket [chemical binding]; other site 582744008450 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008451 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008452 metal binding site [ion binding]; metal-binding site 582744008453 active site 582744008454 I-site; other site 582744008455 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 582744008456 Protein of unknown function, DUF399; Region: DUF399; cl01139 582744008457 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 582744008458 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 582744008459 classical (c) SDRs; Region: SDR_c; cd05233 582744008460 NAD(P) binding site [chemical binding]; other site 582744008461 active site 582744008462 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 582744008463 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 582744008464 conserved cys residue [active] 582744008465 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744008466 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 582744008467 PAS fold; Region: PAS_3; pfam08447 582744008468 putative active site [active] 582744008469 heme pocket [chemical binding]; other site 582744008470 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008471 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008472 metal binding site [ion binding]; metal-binding site 582744008473 active site 582744008474 I-site; other site 582744008475 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 582744008476 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 582744008477 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 582744008478 substrate binding pocket [chemical binding]; other site 582744008479 membrane-bound complex binding site; other site 582744008480 hinge residues; other site 582744008481 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 582744008482 PAS fold; Region: PAS_3; pfam08447 582744008483 putative active site [active] 582744008484 heme pocket [chemical binding]; other site 582744008485 PAS fold; Region: PAS_4; pfam08448 582744008486 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 582744008487 PAS domain; Region: PAS_9; pfam13426 582744008488 putative active site [active] 582744008489 heme pocket [chemical binding]; other site 582744008490 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008492 metal binding site [ion binding]; metal-binding site 582744008493 active site 582744008494 I-site; other site 582744008495 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 582744008496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 582744008497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 582744008498 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 582744008499 putative effector binding pocket; other site 582744008500 putative dimerization interface [polypeptide binding]; other site 582744008501 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 582744008502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 582744008503 NAD(P) binding site [chemical binding]; other site 582744008504 active site 582744008505 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 582744008506 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 582744008507 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 582744008508 active site residue [active] 582744008509 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 582744008510 MgtC family; Region: MgtC; pfam02308 582744008511 putative chaperone; Provisional; Region: PRK11678 582744008512 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 582744008513 nucleotide binding site [chemical binding]; other site 582744008514 putative NEF/HSP70 interaction site [polypeptide binding]; other site 582744008515 SBD interface [polypeptide binding]; other site 582744008516 recombination associated protein; Reviewed; Region: rdgC; PRK00321 582744008517 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 582744008518 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 582744008519 Putative motility protein; Region: YjfB_motility; pfam14070 582744008520 Uncharacterized conserved protein [Function unknown]; Region: COG0397 582744008521 hypothetical protein; Validated; Region: PRK00029 582744008522 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 582744008523 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 582744008524 binding surface 582744008525 TPR motif; other site 582744008526 Sel1-like repeats; Region: SEL1; smart00671 582744008527 Sel1-like repeats; Region: SEL1; smart00671 582744008528 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 582744008529 Domain of unknown function DUF21; Region: DUF21; pfam01595 582744008530 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 582744008531 Transporter associated domain; Region: CorC_HlyC; smart01091 582744008532 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 582744008533 DNA-binding site [nucleotide binding]; DNA binding site 582744008534 RNA-binding motif; other site 582744008535 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 582744008536 rRNA binding site [nucleotide binding]; other site 582744008537 predicted 30S ribosome binding site; other site 582744008538 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 582744008539 Helix-turn-helix domain; Region: HTH_18; pfam12833 582744008540 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 582744008541 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 582744008542 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 582744008543 HlyD family secretion protein; Region: HlyD_3; pfam13437 582744008544 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 582744008545 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 582744008546 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 582744008547 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 582744008548 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744008549 binding surface 582744008550 TPR motif; other site 582744008551 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 582744008552 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 582744008553 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 582744008554 RNA polymerase sigma factor; Provisional; Region: PRK12528 582744008555 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 582744008556 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 582744008557 DNA binding residues [nucleotide binding] 582744008558 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 582744008559 FecR protein; Region: FecR; pfam04773 582744008560 Secretin and TonB N terminus short domain; Region: STN; smart00965 582744008561 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 582744008562 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 582744008563 N-terminal plug; other site 582744008564 ligand-binding site [chemical binding]; other site 582744008565 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 582744008566 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 582744008567 IHF dimer interface [polypeptide binding]; other site 582744008568 IHF - DNA interface [nucleotide binding]; other site 582744008569 coenzyme PQQ biosynthesis protein A; Provisional; Region: PRK14763 582744008570 putative cation:proton antiport protein; Provisional; Region: PRK10669 582744008571 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 582744008572 TrkA-N domain; Region: TrkA_N; pfam02254 582744008573 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 582744008574 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 582744008575 putative substrate binding site [chemical binding]; other site 582744008576 putative ATP binding site [chemical binding]; other site 582744008577 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 582744008578 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 582744008579 putative ADP-binding pocket [chemical binding]; other site 582744008580 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 582744008581 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; cl17915 582744008582 active site 582744008583 motif I; other site 582744008584 motif II; other site 582744008585 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 582744008586 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 582744008587 active site 582744008588 catalytic site [active] 582744008589 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 582744008590 Mechanosensitive ion channel; Region: MS_channel; pfam00924 582744008591 H+ Antiporter protein; Region: 2A0121; TIGR00900 582744008592 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744008593 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008594 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008595 metal binding site [ion binding]; metal-binding site 582744008596 active site 582744008597 I-site; other site 582744008598 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 582744008599 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008601 metal binding site [ion binding]; metal-binding site 582744008602 active site 582744008603 I-site; other site 582744008604 Biofilm formation and stress response factor; Region: BsmA; pfam10014 582744008605 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 582744008606 dimerization interface [polypeptide binding]; other site 582744008607 putative DNA binding site [nucleotide binding]; other site 582744008608 putative Zn2+ binding site [ion binding]; other site 582744008609 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 582744008610 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 582744008611 putative acyl-acceptor binding pocket; other site 582744008612 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 582744008613 acyl-activating enzyme (AAE) consensus motif; other site 582744008614 putative AMP binding site [chemical binding]; other site 582744008615 lysophospholipid transporter LplT; Provisional; Region: PRK11195 582744008616 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 582744008617 putative substrate translocation pore; other site 582744008618 Predicted small secreted protein [Function unknown]; Region: COG5510 582744008619 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 582744008620 active site 582744008621 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 582744008622 coenzyme PQQ biosynthesis protein A; Provisional; Region: PRK14763 582744008623 SURF4 family; Region: SURF4; pfam02077 582744008624 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 582744008625 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 582744008626 putative active site [active] 582744008627 metal binding site [ion binding]; metal-binding site 582744008628 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 582744008629 MltA specific insert domain; Region: MltA; smart00925 582744008630 3D domain; Region: 3D; pfam06725 582744008631 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 582744008632 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 582744008633 ThiS interaction site; other site 582744008634 putative active site [active] 582744008635 tetramer interface [polypeptide binding]; other site 582744008636 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 582744008637 thiS-thiF/thiG interaction site; other site 582744008638 TPR repeat; Region: TPR_11; pfam13414 582744008639 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 582744008640 binding surface 582744008641 TPR motif; other site 582744008642 TPR repeat; Region: TPR_11; pfam13414 582744008643 Tetratricopeptide repeat; Region: TPR_16; pfam13432 582744008644 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 582744008645 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 582744008646 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 582744008647 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 582744008648 catalytic residue [active] 582744008649 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 582744008650 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 582744008651 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 582744008652 dimer interface [polypeptide binding]; other site 582744008653 active site 582744008654 CoA binding pocket [chemical binding]; other site 582744008655 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 582744008656 classical (c) SDRs; Region: SDR_c; cd05233 582744008657 NAD(P) binding site [chemical binding]; other site 582744008658 active site 582744008659 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 582744008660 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 582744008661 putative trimer interface [polypeptide binding]; other site 582744008662 putative CoA binding site [chemical binding]; other site 582744008663 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 582744008664 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 582744008665 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 582744008666 [2Fe-2S] cluster binding site [ion binding]; other site 582744008667 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 582744008668 alpha subunit interface [polypeptide binding]; other site 582744008669 active site 582744008670 substrate binding site [chemical binding]; other site 582744008671 Fe binding site [ion binding]; other site 582744008672 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 582744008673 trimer interface [polypeptide binding]; other site 582744008674 active site 582744008675 substrate binding site [chemical binding]; other site 582744008676 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 582744008677 CoA binding site [chemical binding]; other site 582744008678 Methyltransferase domain; Region: Methyltransf_31; pfam13847 582744008679 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 582744008680 S-adenosylmethionine binding site [chemical binding]; other site 582744008681 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 582744008682 TPR repeat; Region: TPR_11; pfam13414 582744008683 binding surface 582744008684 TPR motif; other site 582744008685 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 582744008686 CsbD-like; Region: CsbD; cl17424 582744008687 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 582744008688 active site 582744008689 catalytic site [active] 582744008690 substrate binding site [chemical binding]; other site 582744008691 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 582744008692 GIY-YIG motif/motif A; other site 582744008693 active site 582744008694 catalytic site [active] 582744008695 putative DNA binding site [nucleotide binding]; other site 582744008696 metal binding site [ion binding]; metal-binding site 582744008697 Rubredoxin [Energy production and conversion]; Region: COG1773 582744008698 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 582744008699 iron binding site [ion binding]; other site 582744008700 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 582744008701 dimer interface [polypeptide binding]; other site 582744008702 substrate binding site [chemical binding]; other site 582744008703 ATP binding site [chemical binding]; other site 582744008704 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 582744008705 thiamine phosphate binding site [chemical binding]; other site 582744008706 active site 582744008707 pyrophosphate binding site [ion binding]; other site 582744008708 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 582744008709 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 582744008710 inhibitor-cofactor binding pocket; inhibition site 582744008711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 582744008712 catalytic residue [active] 582744008713 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 582744008714 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 582744008715 active site 582744008716 dimer interface [polypeptide binding]; other site 582744008717 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 582744008718 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 582744008719 active site 582744008720 FMN binding site [chemical binding]; other site 582744008721 substrate binding site [chemical binding]; other site 582744008722 3Fe-4S cluster binding site [ion binding]; other site 582744008723 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 582744008724 domain interface; other site 582744008725 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 582744008726 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 582744008727 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 582744008728 substrate binding site [chemical binding]; other site 582744008729 active site 582744008730 primosome assembly protein PriA; Validated; Region: PRK05580 582744008731 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 582744008732 ATP binding site [chemical binding]; other site 582744008733 putative Mg++ binding site [ion binding]; other site 582744008734 helicase superfamily c-terminal domain; Region: HELICc; smart00490 582744008735 ATP-binding site [chemical binding]; other site 582744008736 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 582744008737 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 582744008738 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 582744008739 active site 582744008740 HIGH motif; other site 582744008741 KMSK motif region; other site 582744008742 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 582744008743 tRNA binding surface [nucleotide binding]; other site 582744008744 anticodon binding site; other site 582744008745 Sporulation related domain; Region: SPOR; pfam05036 582744008746 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 582744008747 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 582744008748 catalytic residues [active] 582744008749 hinge region; other site 582744008750 alpha helical domain; other site 582744008751 short chain dehydrogenase; Provisional; Region: PRK07024 582744008752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 582744008753 NAD(P) binding site [chemical binding]; other site 582744008754 active site 582744008755 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 582744008756 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 582744008757 putative active site [active] 582744008758 heme pocket [chemical binding]; other site 582744008759 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 582744008760 putative active site [active] 582744008761 heme pocket [chemical binding]; other site 582744008762 PAS fold; Region: PAS_4; pfam08448 582744008763 PAS fold; Region: PAS_4; pfam08448 582744008764 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 582744008765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008766 metal binding site [ion binding]; metal-binding site 582744008767 active site 582744008768 I-site; other site 582744008769 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 582744008770 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 582744008771 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 582744008772 glutaminase active site [active] 582744008773 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 582744008774 dimer interface [polypeptide binding]; other site 582744008775 active site 582744008776 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 582744008777 dimer interface [polypeptide binding]; other site 582744008778 active site 582744008779 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 582744008780 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 582744008781 Substrate binding site; other site 582744008782 Mg++ binding site; other site 582744008783 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 582744008784 active site 582744008785 substrate binding site [chemical binding]; other site 582744008786 CoA binding site [chemical binding]; other site 582744008787 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 582744008788 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 582744008789 gamma subunit interface [polypeptide binding]; other site 582744008790 epsilon subunit interface [polypeptide binding]; other site 582744008791 LBP interface [polypeptide binding]; other site 582744008792 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 582744008793 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 582744008794 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 582744008795 alpha subunit interaction interface [polypeptide binding]; other site 582744008796 Walker A motif; other site 582744008797 ATP binding site [chemical binding]; other site 582744008798 Walker B motif; other site 582744008799 inhibitor binding site; inhibition site 582744008800 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 582744008801 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 582744008802 core domain interface [polypeptide binding]; other site 582744008803 delta subunit interface [polypeptide binding]; other site 582744008804 epsilon subunit interface [polypeptide binding]; other site 582744008805 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 582744008806 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 582744008807 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 582744008808 beta subunit interaction interface [polypeptide binding]; other site 582744008809 Walker A motif; other site 582744008810 ATP binding site [chemical binding]; other site 582744008811 Walker B motif; other site 582744008812 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 582744008813 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 582744008814 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 582744008815 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 582744008816 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 582744008817 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 582744008818 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 582744008819 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 582744008820 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 582744008821 ParB-like nuclease domain; Region: ParBc; pfam02195 582744008822 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 582744008823 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 582744008824 P-loop; other site 582744008825 Magnesium ion binding site [ion binding]; other site 582744008826 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 582744008827 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 582744008828 S-adenosylmethionine binding site [chemical binding]; other site 582744008829 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 582744008830 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 582744008831 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 582744008832 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 582744008833 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 582744008834 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 582744008835 trmE is a tRNA modification GTPase; Region: trmE; cd04164 582744008836 G1 box; other site 582744008837 GTP/Mg2+ binding site [chemical binding]; other site 582744008838 Switch I region; other site 582744008839 G2 box; other site 582744008840 Switch II region; other site 582744008841 G3 box; other site 582744008842 G4 box; other site 582744008843 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 582744008844 membrane protein insertase; Provisional; Region: PRK01318 582744008845 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 582744008846 Haemolytic domain; Region: Haemolytic; pfam01809 582744008847 ribonuclease P; Reviewed; Region: rnpA; PRK04390 582744008848 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 582744008849 catalytic residues [active] 582744008850 Int/Topo IB signature motif; other site 582744008851 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 582744008852 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 582744008853 non-specific DNA binding site [nucleotide binding]; other site 582744008854 salt bridge; other site 582744008855 sequence-specific DNA binding site [nucleotide binding]; other site 582744008856 Predicted transcriptional regulator [Transcription]; Region: COG2944 582744008857 Initiator Replication protein; Region: Rep_3; pfam01051 582744008858 ParA-like protein; Provisional; Region: PHA02518 582744008859 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 582744008860 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 582744008861 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 582744008862 active site 582744008863 DNA binding site [nucleotide binding] 582744008864 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 582744008865 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 582744008866 Catalytic site [active] 582744008867 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 582744008868 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 582744008869 GIY-YIG motif/motif A; other site 582744008870 active site 582744008871 catalytic site [active] 582744008872 DNA binding residues [nucleotide binding] 582744008873 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 582744008874 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 582744008875 Mrr N-terminal domain; Region: Mrr_N; pfam14338 582744008876 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 582744008877 DNA methylase; Region: N6_N4_Mtase; pfam01555 582744008878 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 582744008879 PemK-like protein; Region: PemK; cl00995 582744008880 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 582744008881 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 582744008882 metal binding site [ion binding]; metal-binding site 582744008883 active site 582744008884 I-site; other site 582744008885 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 582744008886 DNA topoisomerase I; Validated; Region: PRK05582 582744008887 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 582744008888 active site 582744008889 interdomain interaction site; other site 582744008890 putative metal-binding site [ion binding]; other site 582744008891 nucleotide binding site [chemical binding]; other site 582744008892 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 582744008893 domain I; other site 582744008894 DNA binding groove [nucleotide binding] 582744008895 phosphate binding site [ion binding]; other site 582744008896 domain II; other site 582744008897 domain III; other site 582744008898 nucleotide binding site [chemical binding]; other site 582744008899 catalytic site [active] 582744008900 domain IV; other site 582744008901 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 582744008902 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 582744008903 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 582744008904 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 582744008905 cofactor binding site; other site 582744008906 DNA binding site [nucleotide binding] 582744008907 substrate interaction site [chemical binding]; other site 582744008908 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 582744008909 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744008910 Walker A motif; other site 582744008911 ATP binding site [chemical binding]; other site 582744008912 Walker B motif; other site 582744008913 replicative DNA helicase; Provisional; Region: PRK05973 582744008914 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 582744008915 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 582744008916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 582744008917 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 582744008918 active site 582744008919 metal binding site [ion binding]; metal-binding site 582744008920 interdomain interaction site; other site 582744008921 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 582744008922 Methyltransferase domain; Region: Methyltransf_26; pfam13659 582744008923 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 582744008924 DEAD-like helicases superfamily; Region: DEXDc; smart00487 582744008925 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 582744008926 helicase superfamily c-terminal domain; Region: HELICc; smart00490 582744008927 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 582744008928 Domain of unknown function DUF87; Region: DUF87; pfam01935 582744008929 AAA-like domain; Region: AAA_10; pfam12846 582744008930 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 582744008931 ParB-like nuclease domain; Region: ParBc; pfam02195 582744008932 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 582744008933 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 582744008934 P-loop; other site 582744008935 Magnesium ion binding site [ion binding]; other site 582744008936 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 582744008937 Magnesium ion binding site [ion binding]; other site 582744008938 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 582744008939 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 582744008940 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 582744008941 VirB7 interaction site; other site 582744008942 VirB8 protein; Region: VirB8; cl01500 582744008943 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 582744008944 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 582744008945 conjugal transfer protein TrbE; Provisional; Region: PRK13891 582744008946 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 582744008947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744008948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 582744008949 Walker A/P-loop; other site 582744008950 Walker A/P-loop; other site 582744008951 ATP binding site [chemical binding]; other site 582744008952 ATP binding site [chemical binding]; other site 582744008953 Q-loop/lid; other site 582744008954 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 582744008955 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 582744008956 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 582744008957 ATP binding site [chemical binding]; other site 582744008958 Walker A motif; other site 582744008959 hexamer interface [polypeptide binding]; other site 582744008960 Walker B motif; other site 582744008961 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 582744008962 ligand binding site [chemical binding]; other site 582744008963 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 582744008964 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 582744008965 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 582744008966 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 582744008967 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 582744008968 Type II/IV secretion system protein; Region: T2SE; pfam00437 582744008969 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744008970 Walker A motif; other site 582744008971 ATP binding site [chemical binding]; other site 582744008972 Walker B motif; other site 582744008973 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744008974 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 582744008975 PilS N terminal; Region: PilS; pfam08805 582744008976 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744008977 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 582744008978 Walker A motif; other site 582744008979 ATP binding site [chemical binding]; other site 582744008980 Walker B motif; other site 582744008981 PilM; Region: PilM; pfam07419 582744008982 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 582744008983 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 582744008984 Walker A motif; other site 582744008985 ATP binding site [chemical binding]; other site 582744008986 Walker B motif; other site 582744008987 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 582744008988 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 582744008989 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 582744008990 non-specific DNA binding site [nucleotide binding]; other site 582744008991 salt bridge; other site 582744008992 sequence-specific DNA binding site [nucleotide binding]; other site 582744008993 AAA domain; Region: AAA_21; pfam13304 582744008994 integrase; Provisional; Region: PRK09692 582744008995 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 582744008996 active site 582744008997 Int/Topo IB signature motif; other site 582744008998 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 582744008999 Zonular occludens toxin (Zot); Region: Zot; cl17485 582744009000 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734