-- dump date 20111121_010928 -- class Genbank::misc_feature -- table misc_feature_note -- id note 536230000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 536230000002 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 536230000003 Ribonuclease P; Region: Ribonuclease_P; cl00457 536230000004 Domain of unknown function DUF37; Region: DUF37; cl00506 536230000005 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01318 536230000006 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 536230000007 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 536230000008 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 536230000009 sequence-specific DNA binding site; other site 536230000010 salt bridge; other site 536230000011 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 536230000012 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 536230000013 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 536230000014 G1 box; other site 536230000015 GTP/Mg2+ binding site; other site 536230000016 Switch I region; other site 536230000017 G2 box; other site 536230000018 Switch II region; other site 536230000019 G3 box; other site 536230000020 G4 box; other site 536230000021 G5 box; other site 536230000022 integrase; Provisional; Region: PRK09692 536230000023 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 536230000024 Int/Topo IB signature motif; other site 536230000025 active site 536230000026 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 536230000027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 536230000028 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...; Region: TOPRIM_primases; cd01029 536230000029 active site 536230000030 metal-binding site 536230000031 interdomain interaction site; other site 536230000032 Domain of unknown function (DUF927); Region: DUF927; cl12098 536230000033 Domain of unknown function (DUF1814); Region: DUF1814; cl00973 536230000034 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 536230000035 catalytic residues; other site 536230000036 catalytic nucleophile; other site 536230000037 Presynaptic Site I dimer interface; other site 536230000038 Synaptic Antiparallel dimer interface; other site 536230000039 Synaptic Flat tetramer interface; other site 536230000040 Synaptic Site I dimer interface; other site 536230000041 DNA binding site 536230000042 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 536230000043 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536230000044 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230000045 YaeQ protein; Region: YaeQ; cl01913 536230000046 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 536230000047 dimer interface; other site 536230000048 metal-binding site 536230000049 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 536230000050 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 536230000051 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230000052 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230000053 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 536230000054 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 536230000055 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 536230000056 DNA binding site 536230000057 active site 536230000058 AlkA N-terminal domain; Region: AlkA_N; pfam06029 536230000059 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 536230000060 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230000061 minor groove reading motif; other site 536230000062 helix-hairpin-helix signature motif; other site 536230000063 substrate binding pocket; other site 536230000064 active site 536230000065 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 536230000066 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 536230000067 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230000068 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536230000069 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 536230000070 DNA binding residues 536230000071 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; cl01482 536230000072 transcriptional activator TtdR; Provisional; Region: PRK09801 536230000073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000074 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 536230000075 putative effector binding pocket; other site 536230000076 dimerization interface; other site 536230000077 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 536230000078 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 536230000079 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 536230000080 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 536230000081 Predicted amidohydrolase [General function prediction only]; Region: COG0388 536230000082 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 536230000083 putative active site; other site 536230000084 catalytic triad; other site 536230000085 putative dimer interface; other site 536230000086 Phage portal protein; Region: Phage_portal; cl01923 536230000087 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 536230000088 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 536230000089 CoenzymeA binding site; other site 536230000090 subunit interaction site; other site 536230000091 PHB binding site; other site 536230000092 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 536230000093 active site 536230000094 nucleophile elbow; other site 536230000095 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 536230000096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230000098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000099 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 536230000100 putative effector binding pocket; other site 536230000101 dimerization interface; other site 536230000102 DNA topoisomerase III; Validated; Region: PRK08173 536230000103 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by...; Region: TOPRIM_TopoIA_TopoIII; cd03362 536230000104 active site 536230000105 putative interdomain interaction site; other site 536230000106 putative metal-binding site; other site 536230000107 putative nucleotide binding site; other site 536230000108 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cd00186 536230000109 domain I; other site 536230000110 DNA binding groove 536230000111 phosphate binding site; other site 536230000112 domain II; other site 536230000113 domain III; other site 536230000114 nucleotide binding site; other site 536230000115 catalytic site; other site 536230000116 domain IV; other site 536230000117 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 536230000118 catalytic residues; other site 536230000119 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 536230000120 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe...; Region: Pep_deformylase; cd00487 536230000121 active site 536230000122 catalytic residues; other site 536230000123 metal-binding site 536230000124 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 536230000125 Formyl transferase; Region: Formyl_trans_N; cl00395 536230000126 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 536230000127 LysE type translocator; Region: LysE; cl00565 536230000128 Peptidase family M48; Region: Peptidase_M48; cl12018 536230000129 16S rRNA methyltransferase B; Provisional; Region: PRK10901 536230000130 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 536230000131 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 536230000132 S-adenosylmethionine binding site; other site 536230000133 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 536230000134 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 536230000135 dimerization interface; other site 536230000136 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 536230000137 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans...; Region: HisKA; cd00082 536230000138 dimer interface; other site 536230000139 phosphorylation site 536230000140 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 536230000141 ATP binding site; other site 536230000142 Mg2+ binding site; other site 536230000143 G-X-G motif; other site 536230000144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230000145 active site 536230000146 phosphorylation site 536230000147 intermolecular recognition site; other site 536230000148 dimerization interface; other site 536230000149 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230000150 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 536230000151 Ligand Binding Site; other site 536230000152 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 536230000153 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; cl14056 536230000154 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 536230000155 active site 536230000156 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 536230000157 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 536230000158 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536230000159 Sel1 repeat; Region: Sel1; cl02723 536230000160 Sel1 repeat; Region: Sel1; cl02723 536230000161 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 536230000162 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 536230000163 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 536230000164 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 536230000165 rod shape-determining protein MreD; Region: MreD; cl01087 536230000166 rod shape-determining protein MreC; Provisional; Region: PRK13922 536230000167 rod shape-determining protein MreC; Region: MreC; pfam04085 536230000168 rod shape-determining protein MreB; Provisional; Region: PRK13927 536230000169 Cell division protein FtsA; Region: FtsA; cl11496 536230000170 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 536230000171 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 536230000172 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 536230000173 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 536230000174 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 536230000175 GatB domain; Region: GatB_Yqey; cl11497 536230000176 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 536230000177 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 536230000178 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 536230000179 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 536230000180 putative NAD(P) binding site; other site 536230000181 putative substrate binding site; other site 536230000182 catalytic Zn binding site; other site 536230000183 structural Zn binding site; other site 536230000184 dimer interface; other site 536230000185 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 536230000186 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230000187 Peptidase family M48; Region: Peptidase_M48; cl12018 536230000188 muropeptide transporter; Reviewed; Region: ampG; PRK11902 536230000189 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230000190 putative substrate translocation pore; other site 536230000191 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230000192 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000193 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 536230000194 nucleoid occlusion protein; Provisional; Region: slmA; PRK09480 536230000195 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230000196 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 536230000197 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230000198 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using...; Region: AAK_NAGK-C; cd04250 536230000199 feedback inhibition sensing region; other site 536230000200 homohexameric interface; other site 536230000201 nucleotide binding site; other site 536230000202 N-acetyl-L-glutamate binding site; other site 536230000203 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 536230000204 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 536230000205 ATP binding site; other site 536230000206 Mg2+ binding site; other site 536230000207 G-X-G motif; other site 536230000208 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 536230000209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230000210 active site 536230000211 phosphorylation site 536230000212 intermolecular recognition site; other site 536230000213 dimerization interface; other site 536230000214 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 536230000215 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 536230000216 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230000217 Walker A motif; other site 536230000218 ATP binding site; other site 536230000219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230000220 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 536230000221 active site 536230000222 HslU subunit interaction site; other site 536230000223 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 536230000224 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 536230000225 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 536230000226 P-loop, Walker A motif; other site 536230000227 Base recognition motif; other site 536230000228 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 536230000229 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 536230000230 PUA domain; Region: PUA; cl00607 536230000231 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230000232 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 536230000233 S-adenosylmethionine binding site; other site 536230000234 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 536230000235 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 536230000236 DNA binding site 536230000237 Int/Topo IB signature motif; other site 536230000238 active site 536230000239 Protein of unknown function, DUF484; Region: DUF484; cl01228 536230000240 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 536230000241 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536230000242 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536230000243 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 536230000244 putative acyl-acceptor binding pocket; other site 536230000245 S-adenosylmethionine synthetase; Validated; Region: PRK05250 536230000246 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 536230000247 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 536230000248 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 536230000249 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 536230000250 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 536230000251 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 536230000252 active site 536230000253 catalytic tetrad; other site 536230000254 EamA-like transporter family; Region: EamA; cl01037 536230000255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230000256 putative substrate translocation pore; other site 536230000257 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 536230000258 Phosphotransferase enzyme family; Region: APH; pfam01636 536230000259 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 536230000260 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 536230000261 NAD(P) binding site; other site 536230000262 catalytic residues; other site 536230000263 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 536230000264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230000265 active site 536230000266 choline dehydrogenase; Validated; Region: PRK02106 536230000267 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 536230000268 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230000269 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 536230000270 Flagellar FliJ protein; Region: FliJ; cl09161 536230000271 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 536230000272 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 536230000273 Walker A motif/ATP binding site; other site 536230000274 Walker B motif; other site 536230000275 flagellar assembly protein H; Validated; Region: fliH; PRK05687 536230000276 Flagellar assembly protein FliH; Region: FliH; pfam02108 536230000277 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 536230000278 FliG C-terminal domain; Region: FliG_C; pfam01706 536230000279 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 536230000280 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 536230000281 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 536230000282 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 536230000283 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 536230000284 Flagellar protein FliS; Region: FliS; cl00654 536230000285 Flagellar protein FliT; Region: FliT; cl05125 536230000286 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 536230000287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 536230000288 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 536230000289 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 536230000290 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230000291 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 536230000292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230000293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230000294 active site 536230000295 phosphorylation site 536230000296 intermolecular recognition site; other site 536230000297 dimerization interface; other site 536230000298 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230000299 DNA binding residues 536230000300 dimerization interface; other site 536230000301 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 536230000302 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 536230000303 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 536230000304 FAD binding pocket; other site 536230000305 FAD binding motif; other site 536230000306 phosphate binding motif; other site 536230000307 beta-alpha-beta structure motif; other site 536230000308 NAD binding pocket; other site 536230000309 LysE type translocator; Region: LysE; cl00565 536230000310 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 536230000311 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230000312 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 536230000313 Walker A motif; other site 536230000314 ATP binding site; other site 536230000315 Walker B motif; other site 536230000316 arginine finger; other site 536230000317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000318 FAD dependent oxidoreductase; Region: DAO; pfam01266 536230000319 High potential iron-sulfur protein; Region: HIPIP; pfam01355 536230000320 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230000321 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230000322 putative substrate translocation pore; other site 536230000323 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536230000324 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 536230000325 peptide binding site; other site 536230000326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230000327 dimer interface; other site 536230000328 conserved gate region; other site 536230000329 putative PBP binding loops; other site 536230000330 ABC-ATPase subunit interface; other site 536230000331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230000332 dimer interface; other site 536230000333 conserved gate region; other site 536230000334 putative PBP binding loops; other site 536230000335 ABC-ATPase subunit interface; other site 536230000336 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 536230000337 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 536230000338 Walker A/P-loop; other site 536230000339 ATP binding site; other site 536230000340 Q-loop/lid; other site 536230000341 ABC transporter signature motif; other site 536230000342 Walker B; other site 536230000343 D-loop; other site 536230000344 H-loop/switch region; other site 536230000345 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230000346 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 536230000347 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 536230000348 Walker A/P-loop; other site 536230000349 ATP binding site; other site 536230000350 Q-loop/lid; other site 536230000351 ABC transporter signature motif; other site 536230000352 Walker B; other site 536230000353 D-loop; other site 536230000354 H-loop/switch region; other site 536230000355 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230000356 GumN protein; Region: GumN; cl12050 536230000357 Protein of unknown function (DUF979); Region: DUF979; cl01572 536230000358 Protein of unknown function (DUF969); Region: DUF969; cl01573 536230000359 LamB/YcsF family; Region: LamB_YcsF; cl00664 536230000360 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 536230000361 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 536230000362 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 536230000363 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 536230000364 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 536230000365 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 536230000366 lytic murein transglycosylase; Provisional; Region: PRK11619 536230000367 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 536230000368 N-acetyl-D-glucosamine binding site; other site 536230000369 catalytic residue; other site 536230000370 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 536230000371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000372 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH)...; Region: GST_N_1; cd03043 536230000373 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536230000374 putative C-terminal domain interface; other site 536230000375 putative GSH binding site (G-site); other site 536230000376 putative dimer interface; other site 536230000377 GST_C family, unknown subfamily 3; composed of uncharacterized 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 endogenous...; Region: GST_C_3; cd03194 536230000378 putative N-terminal domain interface; other site 536230000379 putative dimer interface; other site 536230000380 putative substrate binding pocket (H-site); other site 536230000381 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 536230000382 active site 536230000383 NTP binding site; other site 536230000384 metal binding triad; metal-binding site 536230000385 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 536230000386 Killing trait; Region: RebB; pfam11747 536230000387 FlgN protein; Region: FlgN; cl09176 536230000388 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 536230000389 SAF domain; Region: SAF; cl00555 536230000390 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 536230000391 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 536230000392 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 536230000393 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536230000394 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 536230000395 Flagellar hook capping protein; Region: FlgD; cl04347 536230000396 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 536230000397 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 536230000398 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 536230000399 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 536230000400 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 536230000401 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536230000402 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 536230000403 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 536230000404 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536230000405 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 536230000406 Flagellar L-ring protein; Region: FlgH; cl00905 536230000407 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 536230000408 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 536230000409 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 536230000410 Rod binding protein; Region: Rod-binding; cl01626 536230000411 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 536230000412 YcgR protein; Region: YcgR; pfam07317 536230000413 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 536230000414 PilZ domain; Region: PilZ; cl01260 536230000415 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 536230000416 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 536230000417 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 536230000418 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536230000419 Permease family; Region: Xan_ur_permease; cl00967 536230000420 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 536230000421 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000422 HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 536230000423 dimerization interface; other site 536230000424 substrate binding pocket; other site 536230000425 Chromate transporter; Region: Chromate_transp; cl00902 536230000426 Chromate transporter; Region: Chromate_transp; cl00902 536230000427 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 536230000428 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 536230000429 PhnA protein; Region: PhnA; pfam03831 536230000430 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 536230000431 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230000432 trimer interface; other site 536230000433 eyelet of channel; other site 536230000434 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 536230000435 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 536230000436 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 536230000437 ligand binding site; other site 536230000438 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 536230000439 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 536230000440 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 536230000441 glutathione reductase; Validated; Region: PRK06116 536230000442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000443 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 536230000444 argininosuccinate synthase; Validated; Region: PRK05370 536230000445 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 536230000446 Ligand Binding Site; other site 536230000447 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 536230000448 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 536230000449 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536230000450 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230000451 LemA family; Region: LemA; cl00742 536230000452 Domain of unknown function (DUF477); Region: DUF477; cl01535 536230000453 Domain of unknown function (DUF477); Region: DUF477; cl01535 536230000454 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 536230000455 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 536230000456 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 536230000457 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 536230000458 Avidin family; Region: Avidin; pfam01382 536230000459 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 536230000460 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate...; Region: GFAT; cd00714 536230000461 glutaminase active site; other site 536230000462 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 536230000463 dimer interface; other site 536230000464 active site 536230000465 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 536230000466 dimer interface; other site 536230000467 active site 536230000468 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 536230000469 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 536230000470 Substrate binding site; other site 536230000471 Mg++ binding site; other site 536230000472 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 536230000473 active site 536230000474 substrate binding site; other site 536230000475 CoA binding site; other site 536230000476 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This...; Region: Alpha_ANH_like_II; cd01993 536230000477 Ligand Binding Site; other site 536230000478 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 536230000479 active site 536230000480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000481 Uncharacterized conserved protein [Function unknown]; Region: COG1565 536230000482 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 536230000483 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 536230000484 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 536230000485 putative substrate binding site; other site 536230000486 putative ATP binding site; other site 536230000487 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 536230000488 dimerization interface; other site 536230000489 putative active cleft; other site 536230000490 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230000491 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230000492 DNA binding site 536230000493 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 536230000494 ligand binding site; other site 536230000495 dimerization interface; other site 536230000496 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230000497 Membrane transport protein; Region: Mem_trans; cl09117 536230000498 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230000499 trimer interface; other site 536230000500 eyelet of channel; other site 536230000501 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 536230000502 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000503 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 536230000504 putative effector binding pocket; other site 536230000505 dimerization interface; other site 536230000506 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230000507 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 536230000508 FMN binding site; other site 536230000509 substrate binding site; other site 536230000510 putative catalytic residue; other site 536230000511 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230000512 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000513 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230000514 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000515 EamA-like transporter family; Region: EamA; cl01037 536230000516 EamA-like transporter family; Region: EamA; cl01037 536230000517 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 536230000518 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 536230000519 putative deacylase active site; other site 536230000520 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 536230000521 active site 536230000522 catalytic residues; other site 536230000523 metal-binding site 536230000524 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 536230000525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000526 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 536230000527 putative metal binding site; other site 536230000528 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000529 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_20; cd04679 536230000530 nudix motif; other site 536230000531 Pseudomonas-type; Region: PC_PLC; TIGR03396 536230000532 Phosphoesterase family; Region: Phosphoesterase; cl10627 536230000533 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230000534 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230000535 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230000536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000537 AzlC protein; Region: AzlC; cl00570 536230000538 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 536230000539 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230000540 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000541 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000542 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 536230000543 Cu(I) binding site; other site 536230000544 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 536230000545 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 536230000546 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end...; Region: E_set; cl09101 536230000547 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 536230000548 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 536230000549 dimer interface; other site 536230000550 active site 536230000551 catalytic residue; other site 536230000552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 536230000553 Inclusion body protein; Region: PixA; pfam12306 536230000554 Inclusion body protein; Region: PixA; pfam12306 536230000555 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230000556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230000557 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 536230000558 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 536230000559 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 536230000560 Ion channel; Region: Ion_trans_2; cl11596 536230000561 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 536230000562 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 536230000563 dimer interface; other site 536230000564 PYR/PP interface; other site 536230000565 TPP binding site; other site 536230000566 substrate binding site; other site 536230000567 TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the...; Region: TPP_IOR_alpha; cd02008 536230000568 TPP-binding site; other site 536230000569 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 536230000570 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 536230000571 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 536230000572 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 536230000573 dimer interface; other site 536230000574 Alkaline phosphatase homologues; Region: alkPPc; smart00098 536230000575 active site 536230000576 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 536230000577 Alkaline phosphatase homologues; Region: alkPPc; smart00098 536230000578 active site 536230000579 dimer interface; other site 536230000580 CutC family; Region: CutC; cl01218 536230000581 biotin synthetase; Region: bioB; TIGR00433 536230000582 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 536230000583 FeS/SAM binding site; other site 536230000584 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 536230000585 phosphate acetyltransferase; Reviewed; Region: PRK05632 536230000586 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230000587 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230000588 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 536230000589 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 536230000590 pyridoxal 5'-phosphate binding pocket; other site 536230000591 catalytic residue; other site 536230000592 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 536230000593 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 536230000594 inhibitor-cofactor binding pocket; inhibition site 536230000595 pyridoxal 5'-phosphate binding site; other site 536230000596 catalytic residue; other site 536230000597 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 536230000598 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000599 SEC-C motif; Region: SEC-C; cl12132 536230000600 potential frameshift: common BLAST hit: gi|126440176|ref|YP_001057448.1| short chain dehydrogenase 536230000601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000603 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 536230000604 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 536230000605 dimer interface; other site 536230000606 active site 536230000607 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 536230000608 active site clefts 536230000609 zinc binding site; other site 536230000610 dimer interface; other site 536230000611 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 536230000612 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230000613 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536230000614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230000615 Walker A/P-loop; other site 536230000616 ATP binding site; other site 536230000617 Q-loop/lid; other site 536230000618 ABC transporter signature motif; other site 536230000619 Walker B; other site 536230000620 D-loop; other site 536230000621 H-loop/switch region; other site 536230000622 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230000623 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536230000624 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 536230000625 peptide binding site; other site 536230000626 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 536230000627 active site 536230000628 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230000629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000630 short chain dehydrogenase; Validated; Region: PRK08264 536230000631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000632 short chain dehydrogenase; Provisional; Region: PRK07024 536230000633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000634 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 536230000635 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 536230000636 catalytic residues; other site 536230000637 hinge region; other site 536230000638 alpha helical domain; other site 536230000639 Sporulation related domain; Region: SPOR; cl10051 536230000640 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 536230000641 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 536230000642 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 536230000643 active site 536230000644 HIGH motif; other site 536230000645 KMSK motif region; other site 536230000646 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 536230000647 tRNA binding surface; other site 536230000648 anticodon binding site; other site 536230000649 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 536230000650 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 536230000651 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 536230000652 substrate binding pocket; other site 536230000653 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 536230000654 B12 binding site; other site 536230000655 cobalt ligand; other site 536230000656 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 536230000657 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 536230000658 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 536230000659 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 536230000660 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 536230000661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000662 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230000663 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 536230000664 enoyl-CoA hydratase; Provisional; Region: PRK06142 536230000665 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230000666 substrate binding site; other site 536230000667 oxyanion hole (OAH) forming residues; other site 536230000668 trimer interface; other site 536230000669 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cl11392 536230000670 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 536230000671 active site 536230000672 nucleophile elbow; other site 536230000673 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 536230000674 dinuclear metal binding motif; other site 536230000675 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230000676 HIGH motif; other site 536230000677 active site 536230000678 nucleotide binding site; other site 536230000679 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 536230000680 biotin--protein ligase; Provisional; Region: PRK06955 536230000681 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 536230000682 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536230000683 Sel1 repeat; Region: Sel1; cl02723 536230000684 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 536230000685 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 536230000686 active site 536230000687 metal-binding site 536230000688 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 536230000689 Domain of unknown function DUF140; Region: DUF140; cl00510 536230000690 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 536230000691 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 536230000692 Walker A/P-loop; other site 536230000693 ATP binding site; other site 536230000694 Q-loop/lid; other site 536230000695 ABC transporter signature motif; other site 536230000696 Walker B; other site 536230000697 D-loop; other site 536230000698 H-loop/switch region; other site 536230000699 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 536230000700 mce related protein; Region: MCE; pfam02470 536230000701 Protein of unknown function (DUF330); Region: DUF330; cl01135 536230000702 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 536230000703 dimer interface; other site 536230000704 [2Fe-2S] cluster binding site; other site 536230000705 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 536230000706 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000707 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 536230000708 Beta-lactamase; Region: Beta-lactamase; cl01009 536230000709 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 536230000710 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and D-...; Region: D-AAT_like; cd01558 536230000711 homodimer interface; other site 536230000712 substrate-cofactor binding pocket; other site 536230000713 pyridoxal 5'-phosphate binding site; other site 536230000714 Aminotransferase class IV; Region: Aminotran_4; pfam01063 536230000715 catalytic residue; other site 536230000716 Protein of unknown function (DUF493); Region: DUF493; cl01102 536230000717 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 536230000718 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000719 HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 536230000720 dimerization interface; other site 536230000721 substrate binding pocket; other site 536230000722 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 536230000723 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 536230000724 lipoyl synthase; Provisional; Region: PRK05481 536230000725 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 536230000726 FeS/SAM binding site; other site 536230000727 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 536230000728 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 536230000729 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 536230000730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230000731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000732 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 536230000733 putative effector binding pocket; other site 536230000734 dimerization interface; other site 536230000735 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230000736 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 536230000737 substrate binding site; other site 536230000738 oxyanion hole (OAH) forming residues; other site 536230000739 trimer interface; other site 536230000740 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cl11392 536230000741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000742 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230000743 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230000744 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 536230000745 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230000746 active site 536230000747 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 536230000748 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 536230000749 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 536230000750 active site 536230000751 CoA-transferase family III; Region: CoA_transf_3; cl00778 536230000752 Protein of unknown function, DUF485; Region: DUF485; cl01231 536230000753 Sodium:solute symporter family; Region: SSF; cl00456 536230000754 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 536230000755 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 536230000756 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 536230000757 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans...; Region: HisKA; cd00082 536230000758 dimer interface; other site 536230000759 phosphorylation site 536230000760 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 536230000761 ATP binding site; other site 536230000762 Mg2+ binding site; other site 536230000763 G-X-G motif; other site 536230000764 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230000765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230000766 active site 536230000767 phosphorylation site 536230000768 intermolecular recognition site; other site 536230000769 dimerization interface; other site 536230000770 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230000771 Walker A motif; other site 536230000772 ATP binding site; other site 536230000773 Walker B motif; other site 536230000774 arginine finger; other site 536230000775 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 536230000776 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 536230000777 catalytic residues; other site 536230000778 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230000779 Thioesterase domain; Region: Thioesterase; pfam00975 536230000780 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230000781 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230000782 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 536230000783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230000784 Protein of unknown function (DUF526); Region: DUF526; cl01115 536230000785 Nitrogen regulatory protein P-II; Region: P-II; cl00412 536230000786 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 536230000787 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 536230000788 Glutamate-cysteine ligase; Region: GshA; pfam08886 536230000789 glutathione synthetase; Provisional; Region: PRK05246 536230000790 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 536230000791 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230000792 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cd00006 536230000793 active pocket/dimerization site; other site 536230000794 active site 536230000795 phosphorylation site 536230000796 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 536230000797 dimerization domain swap beta strand; other site 536230000798 regulatory protein interface; other site 536230000799 active site 536230000800 regulatory phosphorylation site; other site 536230000801 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 536230000802 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 536230000803 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 536230000804 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 536230000805 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 536230000806 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 536230000807 ATP binding site; other site 536230000808 substrate interface; other site 536230000809 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 536230000810 C-terminal peptidase (prc); Region: prc; TIGR00225 536230000811 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 536230000812 protein binding site; other site 536230000813 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 536230000814 Catalytic dyad; other site 536230000815 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 536230000816 catalytic core; other site 536230000817 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 536230000818 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 536230000819 active site residue 536230000820 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 536230000821 GSH binding site; other site 536230000822 catalytic residues; other site 536230000823 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 536230000824 SecA binding site; other site 536230000825 Preprotein binding site; other site 536230000826 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 536230000827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000828 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 536230000829 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 536230000830 putative ADP-ribose binding site; other site 536230000831 putative active site; other site 536230000832 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 536230000833 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 536230000834 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230000835 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 536230000836 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 536230000837 S-adenosylmethionine binding site; other site 536230000838 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 536230000839 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 536230000840 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 536230000841 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 536230000842 Cytochrome c; Region: Cytochrom_C; cl11414 536230000843 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230000844 ligand binding site; other site 536230000845 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 536230000846 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 536230000847 Subunit I/III interface; other site 536230000848 D-pathway; other site 536230000849 Subunit I/VIIc interface; other site 536230000850 Subunit I/IV interface; other site 536230000851 Subunit I/II interface; other site 536230000852 Low-spin heme (heme a) binding site; other site 536230000853 Subunit I/VIIa interface; other site 536230000854 Subunit I/VIa interface; other site 536230000855 Dimer interface; other site 536230000856 Putative water exit pathway; other site 536230000857 Binuclear center (heme a3/CuB); other site 536230000858 K-pathway; other site 536230000859 Subunit I/Vb interface; other site 536230000860 Putative proton exit pathway; other site 536230000861 Subunit I/VIb interface; other site 536230000862 Subunit I/VIc interface; other site 536230000863 Electron transfer pathway; other site 536230000864 Subunit I/VIIIb interface; other site 536230000865 Subunit I/VIIb interface; other site 536230000866 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 536230000867 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 536230000868 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 536230000869 Subunit III/VIIa interface; other site 536230000870 Phospholipid binding site; other site 536230000871 Subunit I/III interface; other site 536230000872 Subunit III/VIb interface; other site 536230000873 Subunit III/VIa interface; other site 536230000874 Subunit III/Vb interface; other site 536230000875 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 536230000876 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 536230000877 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 536230000878 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl00696 536230000879 UbiA prenyltransferase family; Region: UbiA; cl00337 536230000880 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 536230000881 Cu(I) binding site; other site 536230000882 YCII-related domain; Region: YCII; cl00999 536230000883 Cache domain; Region: Cache_2; pfam08269 536230000884 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230000885 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230000886 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 536230000887 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 536230000888 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 536230000889 zinc binding site; other site 536230000890 putative ligand binding site; other site 536230000891 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 536230000892 TM-ABC transporter signature motif; other site 536230000893 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 536230000894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230000895 Walker A/P-loop; other site 536230000896 ATP binding site; other site 536230000897 Q-loop/lid; other site 536230000898 ABC transporter signature motif; other site 536230000899 Walker B; other site 536230000900 D-loop; other site 536230000901 H-loop/switch region; other site 536230000902 DNA Polymerase Y-family; Region: Pol_Y_like; cd03468 536230000903 active site 536230000904 DNA binding site 536230000905 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 536230000906 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 536230000907 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 536230000908 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli...; Region: DnaE_OBF; cd04485 536230000909 generic binding surface II; other site 536230000910 generic binding surface I; other site 536230000911 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 536230000912 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230000913 putative di-iron ligands; other site 536230000914 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 536230000915 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 536230000916 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 536230000917 inhibitor-cofactor binding pocket; inhibition site 536230000918 pyridoxal 5'-phosphate binding site; other site 536230000919 catalytic residue; other site 536230000920 ABC-2 type transporter; Region: ABC2_membrane; cl11417 536230000921 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536230000922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230000923 Walker A/P-loop; other site 536230000924 ATP binding site; other site 536230000925 Q-loop/lid; other site 536230000926 ABC transporter signature motif; other site 536230000927 Walker B; other site 536230000928 D-loop; other site 536230000929 H-loop/switch region; other site 536230000930 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 536230000931 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 536230000932 S-adenosylmethionine binding site; other site 536230000933 Citrate synthase; Region: Citrate_synt; pfam00285 536230000934 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A (...; Region: CS_ACL-C_CCL; cl00416 536230000935 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A (...; Region: CS_ACL-C_CCL; cl00416 536230000936 citrylCoA binding site; other site 536230000937 oxalacetate binding site; other site 536230000938 coenzyme A binding site; other site 536230000939 catalytic triad; other site 536230000940 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 536230000941 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230000942 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230000943 active site 536230000944 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 536230000945 active site 536230000946 acyl-CoA ligase (AMP-forming), exosortase system type 1 associated; Region: ligase_PEP_1; TIGR03098 536230000947 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230000948 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230000949 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 536230000950 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 536230000951 dimer interface; other site 536230000952 active site 536230000953 pyridoxal 5'-phosphate (PLP) binding site; other site 536230000954 catalytic residues; other site 536230000955 substrate binding site; other site 536230000956 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 536230000957 active site 536230000958 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 536230000959 dinuclear metal binding motif; other site 536230000960 acyl-CoA synthetase; Validated; Region: PRK09192 536230000961 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230000962 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536230000963 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230000964 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 536230000965 dimerization interface; other site 536230000966 substrate binding pocket; other site 536230000967 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536230000968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230000969 DNA binding site 536230000970 UTRA domain; Region: UTRA; cl06649 536230000971 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 536230000972 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 536230000973 active site 536230000974 dimer interface; other site 536230000975 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 536230000976 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 536230000977 dimer interface; other site 536230000978 active site 536230000979 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 536230000980 dimer interface; other site 536230000981 active site 536230000982 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 536230000983 HPr interaction site; other site 536230000984 glycerol kinase (GK) interaction site; other site 536230000985 active site 536230000986 phosphorylation site 536230000987 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 536230000988 dimerization domain swap beta strand; other site 536230000989 regulatory protein interface; other site 536230000990 active site 536230000991 regulatory phosphorylation site; other site 536230000992 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 536230000993 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 536230000994 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 536230000995 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 536230000996 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 536230000997 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 536230000998 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 536230000999 active site turn 536230001000 phosphorylation site 536230001001 Putative carbohydrate binding domain; Region: CHB_HEX; pfam03173 536230001002 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 536230001003 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 536230001004 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides...; Region: GH20_hexosaminidase; cl02948 536230001005 active site 536230001006 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 536230001007 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 536230001008 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 536230001009 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 536230001010 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 536230001011 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 536230001012 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230001013 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 536230001014 DNA binding residues 536230001015 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 536230001016 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 536230001017 2-isopropylmalate synthase; Validated; Region: PRK03739 536230001018 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 536230001019 active site 536230001020 catalytic residues; other site 536230001021 metal-binding site 536230001022 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230001023 glycosyl transferase family protein; Provisional; Region: PRK08136 536230001024 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536230001025 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 536230001026 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 536230001027 molybdopterin cofactor binding site; other site 536230001028 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 oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 536230001029 molybdopterin cofactor binding site; other site 536230001030 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 536230001031 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 536230001032 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 536230001033 [2Fe-2S] cluster binding site; other site 536230001034 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 536230001035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001036 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 536230001037 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 536230001038 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230001039 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens...; Region: GST_N_Zeta; cd03042 536230001040 maleylacetoacetate isomerase; Region: maiA; TIGR01262 536230001041 C-terminal domain interface; other site 536230001042 GSH binding site (G-site); other site 536230001043 putative dimer interface; other site 536230001044 GST_C family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens...; Region: GST_C_Zeta; cd03191 536230001045 dimer interface; other site 536230001046 N-terminal domain interface; other site 536230001047 putative maleylacetoacetate (MAA) substrate binding site (H site); other site 536230001048 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: FtsY; COG0552 536230001049 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 536230001050 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 536230001051 P loop; other site 536230001052 GTP binding site; other site 536230001053 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230001054 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 536230001055 active site 536230001056 substrate binding site; other site 536230001057 active site motif 536230001058 hypothetical protein; Provisional; Region: PRK13795 536230001059 histidinol-phosphate aminotransferase; Validated; Region: PRK00950 536230001060 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 536230001061 pyridoxal 5'-phosphate binding site; other site 536230001062 homodimer interface; other site 536230001063 catalytic residue; other site 536230001064 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 536230001065 putative active site; other site 536230001066 catalytic residue; other site 536230001067 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 536230001068 5S rRNA interface; other site 536230001069 CTC domain interface; other site 536230001070 L16 interface; other site 536230001071 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 536230001072 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230001073 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 536230001074 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 536230001075 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 536230001076 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 536230001077 TPR motif; other site 536230001078 binding surface 536230001079 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 536230001080 binding surface 536230001081 TPR motif; other site 536230001082 formamidopyrimidine-DNA glycosylase; Validated; Region: PRK01103 536230001083 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 536230001084 DNA binding site 536230001085 catalytic residue; other site 536230001086 H2TH interface; other site 536230001087 putative catalytic residues; other site 536230001088 turnover-facilitating residue; other site 536230001089 intercalation triad; other site 536230001090 8OG recognition residue; other site 536230001091 putative reading head residues; other site 536230001092 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 536230001093 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 536230001094 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 536230001095 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230001096 minor groove reading motif; other site 536230001097 helix-hairpin-helix signature motif; other site 536230001098 active site 536230001099 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 536230001100 DNA binding and oxoG recognition site 536230001101 Found in ATP-dependent protease La (LON); Region: LON; cl01056 536230001102 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 536230001103 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 536230001104 HPr kinase/phosphorylase; Provisional; Region: PRK05428 536230001105 DRTGG domain; Region: DRTGG; cl12147 536230001106 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-...; Region: HprK_C; cd01918 536230001107 Hpr binding site; other site 536230001108 active site 536230001109 homohexamer subunit interaction site; other site 536230001110 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 536230001111 active site 536230001112 phosphorylation site 536230001113 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 536230001114 30S subunit binding site; other site 536230001115 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 536230001116 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 536230001117 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 536230001118 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 536230001119 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 536230001120 Walker A/P-loop; other site 536230001121 ATP binding site; other site 536230001122 Q-loop/lid; other site 536230001123 ABC transporter signature motif; other site 536230001124 Walker B; other site 536230001125 D-loop; other site 536230001126 H-loop/switch region; other site 536230001127 OstA-like protein; Region: OstA; cl00844 536230001128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 536230001129 Protein of unknown function (DUF1239); Region: DUF1239; pfam06835 536230001130 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230001131 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 536230001132 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-...; Region: SIS_Kpsf; cd05014 536230001133 putative active site; other site 536230001134 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 536230001135 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 536230001136 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 536230001137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001138 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 536230001139 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230001140 LysE type translocator; Region: LysE; cl00565 536230001141 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 536230001142 nudix motif; other site 536230001143 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 536230001144 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 536230001145 Formyl transferase; Region: Formyl_trans_N; cl00395 536230001146 Domain of unknown function DUF20; Region: UPF0118; cl00465 536230001147 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 536230001148 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 536230001149 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 536230001150 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 536230001151 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001152 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230001153 putative substrate translocation pore; other site 536230001154 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 536230001155 dimer interface; other site 536230001156 ssDNA binding site; other site 536230001157 tetramer (dimer of dimers) interface; other site 536230001158 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 536230001159 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230001160 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 536230001161 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 536230001162 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 536230001163 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 536230001164 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536230001165 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536230001166 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 536230001167 phosphopeptide binding site; other site 536230001168 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 536230001169 active site 536230001170 ATP binding site; other site 536230001171 substrate binding site; other site 536230001172 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 536230001173 activation loop (A-loop); other site 536230001174 cyclase homology domain; Region: CHD; cd07302 536230001175 dimer interface; other site 536230001176 nucleotidyl binding site; other site 536230001177 metal-binding site 536230001178 Predicted ATPase [General function prediction only]; Region: COG3899 536230001179 conserved hypothetical protein, BMA_0021 family; Region: chp_BMA0021; TIGR03795 536230001180 conserved hypothetical protein, BMA_0021 family; Region: chp_BMA0021; TIGR03795 536230001181 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 536230001182 YcaO-like family; Region: YcaO; cl09146 536230001183 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 536230001184 intersubunit interface; other site 536230001185 active site 536230001186 Zn2+ binding site; other site 536230001187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 536230001188 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230001189 metal-binding site 536230001190 active site 536230001191 I-site; other site 536230001192 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 536230001193 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 536230001194 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 536230001195 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 536230001196 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 536230001197 Substrate binding site; other site 536230001198 Cupin domain; Region: Cupin_2; cl09118 536230001199 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230001200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230001201 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 536230001202 putative ADP-binding pocket; other site 536230001203 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 536230001204 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230001205 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230001206 Walker A motif; other site 536230001207 ATP binding site; other site 536230001208 Walker B motif; other site 536230001209 arginine finger; other site 536230001210 hydrolase, ortholog 1, exosortase system type 1 associated; Region: hydr1_PEP; TIGR03100 536230001211 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 536230001212 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 536230001213 hypothetical protein; Validated; Region: PRK07080 536230001214 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 536230001215 dimer interface; other site 536230001216 motif 1; other site 536230001217 active site 536230001218 motif 2; other site 536230001219 motif 3; other site 536230001220 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230001221 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230001222 active site 536230001223 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230001224 active site 536230001225 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230001226 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230001227 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 536230001228 ligand binding site; other site 536230001229 flexible hinge region; other site 536230001230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001231 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230001232 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 536230001233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001234 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 536230001235 Bacterial sugar transferase; Region: Bac_transf; cl00939 536230001236 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536230001237 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 536230001238 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 536230001239 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 536230001240 CHRD domain; Region: CHRD; cl06473 536230001241 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230001242 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536230001243 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001244 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230001245 putative substrate translocation pore; other site 536230001246 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001247 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230001248 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001249 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 536230001250 conserved cys residue; other site 536230001251 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 536230001252 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 536230001253 dimer interface; other site 536230001254 active site 536230001255 pyridoxal 5'-phosphate (PLP) binding site; other site 536230001256 substrate binding site; other site 536230001257 catalytic residue; other site 536230001258 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536230001259 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 536230001260 putative active site; other site 536230001261 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 536230001262 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 536230001263 active site 536230001264 putative substrate binding pocket; other site 536230001265 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 536230001266 homotrimer interaction site; other site 536230001267 putative active site; other site 536230001268 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 536230001269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 536230001270 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 536230001271 threonine dehydratase; Reviewed; Region: PRK09224 536230001272 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 536230001273 tetramer interface; other site 536230001274 pyridoxal 5'-phosphate binding site; other site 536230001275 catalytic residue; other site 536230001276 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 536230001277 putative Ile/Val binding site; other site 536230001278 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 536230001279 putative Ile/Val binding site; other site 536230001280 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 536230001281 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230001282 FAD binding domain; Region: FAD_binding_4; cl10516 536230001283 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 536230001284 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 536230001285 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 536230001286 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 536230001287 nucleotide binding site/active site; other site 536230001288 HIT family signature motif; other site 536230001289 catalytic residue; other site 536230001290 Protein of unknown function (DUF971); Region: DUF971; cl01414 536230001291 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 536230001292 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 536230001293 S-adenosylmethionine binding site; other site 536230001294 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230001295 Tim44-like domain; Region: Tim44; cl09208 536230001296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 536230001297 SCP-2 sterol transfer family; Region: SCP2; cl01225 536230001298 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 536230001299 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230001300 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 536230001301 Protein of unknown function (DUF502); Region: DUF502; cl01107 536230001302 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 536230001303 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 536230001304 dimer interface; other site 536230001305 anticodon binding site; other site 536230001306 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 536230001307 homodimer interface; other site 536230001308 motif 1; other site 536230001309 active site 536230001310 motif 2; other site 536230001311 GAD domain; Region: GAD; pfam02938 536230001312 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 536230001313 motif 3; other site 536230001314 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 536230001315 nudix motif; other site 536230001316 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 536230001317 active site 536230001318 signature motif; other site 536230001319 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 536230001320 active site 536230001321 signature motif; other site 536230001322 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230001323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230001324 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 536230001325 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230001326 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 536230001327 FAD binding site; other site 536230001328 substrate binding site; other site 536230001329 catalytic residues; other site 536230001330 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 536230001331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001332 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230001333 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230001334 substrate binding site; other site 536230001335 oxyanion hole (OAH) forming residues; other site 536230001336 trimer interface; other site 536230001337 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 536230001338 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 536230001339 dimer interface; other site 536230001340 active site 536230001341 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230001342 enoyl-CoA hydratase; Provisional; Region: PRK06142 536230001343 substrate binding site; other site 536230001344 oxyanion hole (OAH) forming residues; other site 536230001345 trimer interface; other site 536230001346 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cl11392 536230001347 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 536230001348 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 536230001349 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 536230001350 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 536230001351 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 536230001352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230001353 Walker A/P-loop; other site 536230001354 ATP binding site; other site 536230001355 Q-loop/lid; other site 536230001356 ABC transporter signature motif; other site 536230001357 Walker B; other site 536230001358 D-loop; other site 536230001359 H-loop/switch region; other site 536230001360 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 536230001361 Substrate binding site; other site 536230001362 metal-binding site 536230001363 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 536230001364 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 536230001365 Organic solvent tolerance protein; Region: OstA_C; pfam04453 536230001366 SurA N-terminal domain; Region: SurA_N; pfam09312 536230001367 PPIC-type PPIASE domain; Region: Rotamase; cl08278 536230001368 PPIC-type PPIASE domain; Region: Rotamase; cl08278 536230001369 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 536230001370 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230001371 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 536230001372 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 536230001373 dimer interface; other site 536230001374 active site 536230001375 metal-binding site 536230001376 glutathione binding site; other site 536230001377 Protein of unknown function DUF45; Region: DUF45; cl00636 536230001378 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 536230001379 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536230001380 putative acyl-acceptor binding pocket; other site 536230001381 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 536230001382 active site 536230001383 motif I; other site 536230001384 motif II; other site 536230001385 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 536230001386 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 536230001387 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 536230001388 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 536230001389 dimer interface; other site 536230001390 motif 1; other site 536230001391 active site 536230001392 motif 2; other site 536230001393 motif 3; other site 536230001394 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 536230001395 Predicted amidohydrolase [General function prediction only]; Region: COG0388 536230001396 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 536230001397 putative active site; other site 536230001398 catalytic triad; other site 536230001399 putative dimer interface; other site 536230001400 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 536230001401 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 536230001402 Transporter associated domain; Region: CorC_HlyC; pfam03471 536230001403 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 536230001404 putative active site pocket; other site 536230001405 dimerization interface; other site 536230001406 putative catalytic residue; other site 536230001407 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 536230001408 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 536230001409 PhoH-like protein; Region: PhoH; cl12134 536230001410 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 536230001411 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536230001412 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 536230001413 FeS/SAM binding site; other site 536230001414 TRAM domain; Region: TRAM; cl01282 536230001415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230001416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001417 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 536230001418 putative effector binding pocket; other site 536230001419 dimerization interface; other site 536230001420 MFS transport protein AraJ; Provisional; Region: PRK10091 536230001421 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001422 putative substrate translocation pore; other site 536230001423 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 536230001424 Cupin domain; Region: Cupin_2; cl09118 536230001425 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 536230001426 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536230001427 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 536230001428 motif II; other site 536230001429 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536230001430 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230001431 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 536230001432 active site 536230001433 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 536230001434 dimer interface; other site 536230001435 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 536230001436 Ligand Binding Site; other site 536230001437 Molecular Tunnel; other site 536230001438 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 536230001439 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 536230001440 hinge; other site 536230001441 active site 536230001442 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 536230001443 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 536230001444 putative active site; other site 536230001445 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 536230001446 homotrimer interaction site; other site 536230001447 putative active site; other site 536230001448 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cl00200 536230001449 amphipathic channel; other site 536230001450 Asn-Pro-Ala signature motifs; other site 536230001451 glycerol kinase; Provisional; Region: glpK; PRK00047 536230001452 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 536230001453 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 536230001454 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 536230001455 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536230001456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001457 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 536230001458 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 536230001459 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 536230001460 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 536230001461 dinuclear metal binding motif; other site 536230001462 helicase 45; Provisional; Region: PTZ00424 536230001463 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 536230001464 ATP binding site; other site 536230001465 Mg++ binding site; other site 536230001466 motif III; other site 536230001467 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 536230001468 nucleotide binding region; other site 536230001469 ATP-binding site; other site 536230001470 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230001471 Cytochrome c; Region: Cytochrom_C; cl11414 536230001472 Cytochrome c; Region: Cytochrom_C; cl11414 536230001473 Cytochrome c; Region: Cytochrom_C; cl11414 536230001474 Copper resistance protein D; Region: CopD; cl00563 536230001475 galactonate dehydratase; Provisional; Region: PRK14017 536230001476 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 536230001477 putative active site pocket; other site 536230001478 putative metal binding site; other site 536230001479 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 536230001480 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230001481 active site 536230001482 metal-binding site 536230001483 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 536230001484 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 536230001485 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 536230001486 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 536230001487 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230001488 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 536230001489 linker region; other site 536230001490 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 536230001491 ATP binding site; other site 536230001492 Mg2+ binding site; other site 536230001493 G-X-G motif; other site 536230001494 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 536230001495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230001496 active site 536230001497 phosphorylation site 536230001498 intermolecular recognition site; other site 536230001499 dimerization interface; other site 536230001500 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536230001501 Zn2+ binding site; other site 536230001502 Mg2+ binding site; other site 536230001503 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 536230001504 PAS fold; Region: PAS_3; pfam08447 536230001505 putative active site; other site 536230001506 heme pocket; other site 536230001507 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 536230001508 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230001509 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230001510 FAD binding domain; Region: FAD_binding_4; cl10516 536230001511 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 536230001512 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 536230001513 dimerization interface; other site 536230001514 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 536230001515 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 536230001516 active site residue 536230001517 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230001518 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 536230001519 Walker A/P-loop; other site 536230001520 ATP binding site; other site 536230001521 Q-loop/lid; other site 536230001522 ABC transporter signature motif; other site 536230001523 Walker B; other site 536230001524 D-loop; other site 536230001525 H-loop/switch region; other site 536230001526 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl01965 536230001527 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 536230001528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230001529 dimer interface; other site 536230001530 conserved gate region; other site 536230001531 putative PBP binding loops; other site 536230001532 ABC-ATPase subunit interface; other site 536230001533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230001534 Erythromycin esterase; Region: Erythro_esteras; pfam05139 536230001535 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 536230001536 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: NAPRTase_A; cd01570 536230001537 active site 536230001538 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230001539 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 536230001540 Transglycosylase; Region: Transgly; cl07896 536230001541 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 536230001542 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230001543 Cytochrome c; Region: Cytochrom_C; cl11414 536230001544 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 536230001545 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 536230001546 D-pathway; other site 536230001547 Putative ubiquinol binding site; other site 536230001548 Low-spin heme (heme b) binding site; other site 536230001549 Putative water exit pathway; other site 536230001550 Binuclear center (heme o3/CuB); other site 536230001551 K-pathway; other site 536230001552 Putative proton exit pathway; other site 536230001553 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the...; Region: Heme_Cu_Oxidase_III_2; cd02865 536230001554 Subunit I/III interface; other site 536230001555 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 536230001556 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 536230001557 Cytochrome c; Region: Cytochrom_C; cl11414 536230001558 thiamine pyrophosphate protein; Provisional; Region: PRK08273 536230001559 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 536230001560 PYR/PP interface; other site 536230001561 tetramer interface; other site 536230001562 dimer interface; other site 536230001563 TPP binding site; other site 536230001564 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230001565 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX...; Region: TPP_POX; cd02014 536230001566 TPP-binding site; other site 536230001567 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 536230001568 metal-binding site 536230001569 substrate binding pocket; other site 536230001570 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 536230001571 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 536230001572 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230001573 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 536230001574 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 536230001575 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-...; Region: Ntn_hydrolase; cl00467 536230001576 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and 7-...; Region: Ntn_PGA_like; cd03747 536230001577 active site 536230001578 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 536230001579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001580 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 536230001581 putative effector binding pocket; other site 536230001582 putative dimerization interface; other site 536230001583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 536230001584 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans...; Region: HisKA; cd00082 536230001585 dimer interface; other site 536230001586 phosphorylation site 536230001587 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 536230001588 ATP binding site; other site 536230001589 Mg2+ binding site; other site 536230001590 G-X-G motif; other site 536230001591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230001592 active site 536230001593 phosphorylation site 536230001594 intermolecular recognition site; other site 536230001595 dimerization interface; other site 536230001596 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 536230001597 BetR domain; Region: BetR; pfam08667 536230001598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230001599 active site 536230001600 phosphorylation site 536230001601 intermolecular recognition site; other site 536230001602 dimerization interface; other site 536230001603 Transposase domain (DUF772); Region: DUF772; cl12084 536230001604 Transposase DDE domain; Region: Transposase_11; pfam01609 536230001605 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cl11392 536230001606 active site 536230001607 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 536230001608 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 536230001609 motif II; other site 536230001610 Predicted membrane-associated trancriptional regulator [Transcription]; Region: COG2512 536230001611 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 536230001612 Phage integrase family; Region: Phage_integrase; pfam00589 536230001613 DNA binding site 536230001614 Int/Topo IB signature motif; other site 536230001615 active site 536230001616 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001617 putative substrate translocation pore; other site 536230001618 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230001619 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 536230001620 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 536230001621 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230001622 dimer interface; other site 536230001623 phosphorylation site 536230001624 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 536230001625 ATP binding site; other site 536230001626 Mg2+ binding site; other site 536230001627 G-X-G motif; other site 536230001628 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 536230001629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230001630 active site 536230001631 phosphorylation site 536230001632 intermolecular recognition site; other site 536230001633 dimerization interface; other site 536230001634 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230001635 DNA binding site 536230001636 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 536230001637 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 536230001638 hexamer interface; other site 536230001639 Walker A motif; other site 536230001640 ATP binding site; other site 536230001641 Walker B motif; other site 536230001642 RecX family; Region: RecX; cl00936 536230001643 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 536230001644 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 536230001645 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230001646 CoA-ligase; Region: Ligase_CoA; pfam00549 536230001647 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 536230001648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001649 CoA-ligase; Region: Ligase_CoA; pfam00549 536230001650 Integral membrane protein TerC family; Region: TerC; cl10468 536230001651 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 536230001652 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 536230001653 O-Antigen ligase; Region: Wzy_C; cl04850 536230001654 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 536230001655 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 536230001656 Gram-negative bacterial tonB protein; Region: TonB; cl10048 536230001657 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a...; Region: MoaC_PE; cd01420 536230001658 trimer interface; other site 536230001659 dimer interface; other site 536230001660 putative active site; other site 536230001661 Peptidase family M48; Region: Peptidase_M48; cl12018 536230001662 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 536230001663 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 536230001664 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 536230001665 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230001666 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 536230001667 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230001668 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 536230001669 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 536230001670 putative active site; other site 536230001671 Zinc-finger domain; Region: zf-CHCC; cl01821 536230001672 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 alpha-...; Region: BCAT_beta_family; cd01557 536230001673 homodimer interface; other site 536230001674 substrate-cofactor binding pocket; other site 536230001675 Aminotransferase class IV; Region: Aminotran_4; pfam01063 536230001676 catalytic residue; other site 536230001677 AzlC protein; Region: AzlC; cl00570 536230001678 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 536230001679 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 536230001680 substrate binding site; other site 536230001681 hinge regions; other site 536230001682 ADP binding site; other site 536230001683 catalytic site; other site 536230001684 pyruvate kinase; Provisional; Region: PRK05826 536230001685 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; cl10032 536230001686 domain interfaces; other site 536230001687 active site 536230001688 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 536230001689 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 536230001690 intersubunit interface; other site 536230001691 active site 536230001692 zinc binding site; other site 536230001693 Na+ binding site; other site 536230001694 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 536230001695 ATP binding site; other site 536230001696 active site 536230001697 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 536230001698 substrate binding site; other site 536230001699 AIR carboxylase; Region: AIRC; cl00310 536230001700 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 536230001701 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230001702 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 536230001703 SUA5 domain; Region: SUA5; pfam03481 536230001704 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 536230001705 active site 536230001706 catalytic triad; other site 536230001707 oxyanion hole; other site 536230001708 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 536230001709 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl03453 536230001710 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 536230001711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230001712 active site 536230001713 phosphorylation site 536230001714 intermolecular recognition site; other site 536230001715 dimerization interface; other site 536230001716 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230001717 DNA binding site 536230001718 sensor protein QseC; Provisional; Region: PRK10337 536230001719 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 536230001720 ATP binding site; other site 536230001721 Mg2+ binding site; other site 536230001722 G-X-G motif; other site 536230001723 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 536230001724 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 536230001725 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 536230001726 protein binding site; other site 536230001727 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 536230001728 protein binding site; other site 536230001729 Domain of unknown function (DUF427); Region: DUF427; cl00998 536230001730 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 536230001731 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 536230001732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230001733 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 536230001734 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 536230001735 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 536230001736 Protein export membrane protein; Region: SecD_SecF; cl14618 536230001737 NodT family; Region: outer_NodT; TIGR01845 536230001738 Outer membrane efflux protein; Region: OEP; pfam02321 536230001739 Outer membrane efflux protein; Region: OEP; pfam02321 536230001740 Permease family; Region: Xan_ur_permease; cl00967 536230001741 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 536230001742 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 536230001743 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 536230001744 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230001745 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 536230001746 conserved cys residue; other site 536230001747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230001748 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 536230001749 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 536230001750 substrate binding site; other site 536230001751 catalytic Zn binding site; other site 536230001752 NAD binding site; other site 536230001753 structural Zn binding site; other site 536230001754 dimer interface; other site 536230001755 Predicted esterase [General function prediction only]; Region: COG0627 536230001756 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230001757 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 536230001758 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 536230001759 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron...; Region: ABC_Metallic_Cations; cd03235 536230001760 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 536230001761 metal-binding site 536230001762 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536230001763 metal binding site 2; metal-binding site 536230001764 putative DNA binding helix; other site 536230001765 metal binding site 1; metal-binding site 536230001766 dimer interface; other site 536230001767 structural Zn2+ binding site; other site 536230001768 sorbitol dehydrogenase; Provisional; Region: PRK07067 536230001769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001770 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 536230001771 substrate binding site; other site 536230001772 ATP binding site; other site 536230001773 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 536230001774 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 536230001775 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 536230001776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230001777 dimer interface; other site 536230001778 conserved gate region; other site 536230001779 putative PBP binding loops; other site 536230001780 ABC-ATPase subunit interface; other site 536230001781 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230001782 dimer interface; other site 536230001783 conserved gate region; other site 536230001784 putative PBP binding loops; other site 536230001785 ABC-ATPase subunit interface; other site 536230001786 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536230001787 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 536230001788 active site 536230001789 motif I; other site 536230001790 motif II; other site 536230001791 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 536230001792 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 536230001793 Walker A/P-loop; other site 536230001794 ATP binding site; other site 536230001795 Q-loop/lid; other site 536230001796 ABC transporter signature motif; other site 536230001797 Walker B; other site 536230001798 D-loop; other site 536230001799 H-loop/switch region; other site 536230001800 TOBE domain; Region: TOBE_2; cl01440 536230001801 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230001802 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 536230001803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001804 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 536230001805 putative effector binding pocket; other site 536230001806 putative dimerization interface; other site 536230001807 Beta-lactamase; Region: Beta-lactamase; cl01009 536230001808 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 536230001809 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001810 putative substrate translocation pore; other site 536230001811 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 536230001812 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 536230001813 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 536230001814 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 536230001815 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 536230001816 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 536230001817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001818 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 536230001819 dimerization interface; other site 536230001820 benzoylformate decarboxylase; Reviewed; Region: PRK07092 536230001821 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230001822 PYR/PP interface; other site 536230001823 dimer interface; other site 536230001824 TPP binding site; other site 536230001825 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230001826 TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of benzoylformate to benzaldehyde and carbon dioxide. This...; Region: TPP_BFDC; cd02002 536230001827 TPP-binding site; other site 536230001828 dimer interface; other site 536230001829 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 536230001830 NAD(P) binding site; other site 536230001831 catalytic residues; other site 536230001832 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 536230001833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001834 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536230001835 benzoate transport; Region: 2A0115; TIGR00895 536230001836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001837 putative substrate translocation pore; other site 536230001838 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001839 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 536230001840 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 536230001841 kynureninase; Region: kynureninase; TIGR01814 536230001842 Putative cyclase; Region: Cyclase; cl00814 536230001843 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230001844 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001845 Flavin Reductases; Region: FlaRed; cl00801 536230001846 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 536230001847 Protein of unknown function DUF72; Region: DUF72; cl00777 536230001848 Cyclopropane-fatty-acyl-phospholipid synthase; Region: CMAS; pfam02353 536230001849 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 536230001850 S-adenosylmethionine binding site; other site 536230001851 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 536230001852 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 536230001853 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 536230001854 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...; Region: YgdL_like; cd00755 536230001855 putative ATP binding site; other site 536230001856 putative substrate interface; other site 536230001857 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 536230001858 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 536230001859 catalytic residues; other site 536230001860 Pirin-related protein [General function prediction only]; Region: COG1741 536230001861 Cupin domain; Region: Cupin_2; cl09118 536230001862 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 536230001863 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 536230001864 EamA-like transporter family; Region: EamA; cl01037 536230001865 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 536230001866 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 536230001867 active site 536230001868 metal-binding site 536230001869 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 536230001870 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 536230001871 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 536230001872 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 536230001873 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 536230001874 DNA binding site 536230001875 active site 536230001876 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 536230001877 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 536230001878 Int/Topo IB signature motif; other site 536230001879 active site 536230001880 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 536230001881 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230001882 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS...; Region: YbaK_deacylase; cd00002 536230001883 putative deacylase active site; other site 536230001884 Domain of unknown function (DUF205); Region: DUF205; cl00410 536230001885 Protein of unknown function (DUF520); Region: DUF520; cl00723 536230001886 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 536230001887 FAD binding domain; Region: FAD_binding_4; cl10516 536230001888 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 536230001889 ornithine carbamoyltransferase; Provisional; Region: PRK00779 536230001890 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536230001891 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536230001892 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 536230001893 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 536230001894 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 536230001895 Uncharacterized conserved protein [Function unknown]; Region: COG2912 536230001896 putative transcriptional regulator; Provisional; Region: PRK10941 536230001897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001898 adenylate kinase; Reviewed; Region: adk; PRK00279 536230001899 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 536230001900 AMP-binding site; other site 536230001901 ATP-AMP (Ap5A)-binding site; other site 536230001902 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 536230001903 Ligand binding site; other site 536230001904 oligomer interface; other site 536230001905 Trm112p-like protein; Region: Trm112p; cl01066 536230001906 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 536230001907 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 536230001908 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 536230001909 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-...; Region: ExoVII_LU_OBF; cd04489 536230001910 generic binding surface II; other site 536230001911 generic binding surface I; other site 536230001912 superoxide dismutase; Provisional; Region: PRK10543 536230001913 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 536230001914 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 536230001915 Chromate transporter; Region: Chromate_transp; cl00902 536230001916 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 536230001917 Chromate transporter; Region: Chromate_transp; cl00902 536230001918 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230001919 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 536230001920 ligand binding site; other site 536230001921 flexible hinge region; other site 536230001922 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230001923 Protein of unknown function (DUF962); Region: DUF962; cl01879 536230001924 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 536230001925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001926 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536230001927 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230001928 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 536230001929 multidrug efflux system protein MdtE; Provisional; Region: PRK10504 536230001930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230001931 putative substrate translocation pore; other site 536230001932 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 536230001933 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A (...; Region: CS_ACL-C_CCL; cl00416 536230001934 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the...; Region: citrate_synt_like_2; cd06102 536230001935 dimer interface; other site 536230001936 active site 536230001937 oxalacetate/citrate binding site; other site 536230001938 citrylCoA binding site; other site 536230001939 coenzyme A binding site; other site 536230001940 catalytic triad; other site 536230001941 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536230001942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230001943 DNA binding site 536230001944 UTRA domain; Region: UTRA; cl06649 536230001945 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 536230001946 active site 536230001947 catalytic tetrad; other site 536230001948 elongation factor G; Reviewed; Region: PRK00007 536230001949 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 536230001950 G1 box; other site 536230001951 putative GEF interaction site; other site 536230001952 GTP/Mg2+ binding site; other site 536230001953 Switch I region; other site 536230001954 G2 box; other site 536230001955 G3 box; other site 536230001956 Switch II region; other site 536230001957 G4 box; other site 536230001958 G5 box; other site 536230001959 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 536230001960 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 536230001961 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 536230001962 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 536230001963 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 536230001964 pseudouridine synthase; Region: TIGR00093 536230001965 active site 536230001966 isocitrate dehydrogenase; Validated; Region: PRK07362 536230001967 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 536230001968 multicopper oxidase; Provisional; Region: PRK10965 536230001969 Multicopper oxidase; Region: Cu-oxidase; cl11412 536230001970 Multicopper oxidase; Region: Cu-oxidase; cl11412 536230001971 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 536230001972 DNA binding site 536230001973 RNA-binding motif; other site 536230001974 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 536230001975 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 536230001976 Clp amino terminal domain; Region: Clp_N; pfam02861 536230001977 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230001978 Walker A motif; other site 536230001979 ATP binding site; other site 536230001980 Walker B motif; other site 536230001981 arginine finger; other site 536230001982 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230001983 Walker A motif; other site 536230001984 ATP binding site; other site 536230001985 Walker B motif; other site 536230001986 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536230001987 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230001988 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 536230001989 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230001990 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230001991 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230001992 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 536230001993 trimer interface; other site 536230001994 active site 536230001995 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 536230001996 Flavoprotein; Region: Flavoprotein; cl08021 536230001997 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 536230001998 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 536230001999 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 536230002000 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230002001 HIGH motif; other site 536230002002 active site 536230002003 nucleotide binding site; other site 536230002004 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 536230002005 active site 536230002006 KMSKS motif; other site 536230002007 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 536230002008 tRNA binding surface; other site 536230002009 anticodon binding site; other site 536230002010 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 536230002011 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 536230002012 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 536230002013 active site 536230002014 Riboflavin kinase; Region: Flavokinase; pfam01687 536230002015 Formyl transferase; Region: Formyl_trans_N; cl00395 536230002016 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 536230002017 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 536230002018 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230002019 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 536230002020 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230002021 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 536230002022 Di-iron ligands; other site 536230002023 MRVI1 protein; Region: MRVI1; pfam05781 536230002024 Quinolinate synthetase A protein; Region: NadA; cl00420 536230002025 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 536230002026 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-...; Region: QPRTase; cd01572 536230002027 dimerization interface; other site 536230002028 active site 536230002029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002030 L-aspartate oxidase; Provisional; Region: PRK09077 536230002031 domain; Region: Succ_DH_flav_C; pfam02910 536230002032 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 536230002033 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 536230002034 DNA repair protein RadC; Reviewed; Region: radC; PRK00024 536230002035 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 536230002036 MPN+ (JAMM) motif; other site 536230002037 Zinc-binding site; other site 536230002038 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 536230002039 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 536230002040 LytB protein; Region: LYTB; cl00507 536230002041 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 536230002042 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 536230002043 TM-ABC transporter signature motif; other site 536230002044 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 536230002045 TM-ABC transporter signature motif; other site 536230002046 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230002047 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 536230002048 Walker A/P-loop; other site 536230002049 ATP binding site; other site 536230002050 Q-loop/lid; other site 536230002051 ABC transporter signature motif; other site 536230002052 Walker B; other site 536230002053 D-loop; other site 536230002054 H-loop/switch region; other site 536230002055 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230002056 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 536230002057 Walker A/P-loop; other site 536230002058 ATP binding site; other site 536230002059 Q-loop/lid; other site 536230002060 ABC transporter signature motif; other site 536230002061 Walker B; other site 536230002062 D-loop; other site 536230002063 H-loop/switch region; other site 536230002064 Uncharacterized conserved protein (DUF2278); Region: DUF2278; cl02405 536230002065 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230002066 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 536230002067 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 536230002068 inhibitor-cofactor binding pocket; inhibition site 536230002069 pyridoxal 5'-phosphate binding site; other site 536230002070 catalytic residue; other site 536230002071 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 536230002072 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 536230002073 catalytic loop; other site 536230002074 iron binding site; other site 536230002075 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...; Region: flavin_oxioreductase; cd06189 536230002076 FAD binding pocket; other site 536230002077 FAD binding motif; other site 536230002078 phosphate binding motif; other site 536230002079 beta-alpha-beta structure motif; other site 536230002080 NAD binding pocket; other site 536230002081 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536230002082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002083 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536230002084 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 536230002085 RNA binding surface; other site 536230002086 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 536230002087 active site 536230002088 uracil binding; other site 536230002089 Copper resistance protein CopC; Region: CopC; cl01012 536230002090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002092 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 536230002093 dimerization interface; other site 536230002094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002095 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 536230002096 dimerization interface; other site 536230002097 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230002098 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230002099 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230002100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 536230002101 MOSC domain; Region: MOSC; pfam03473 536230002102 3-alpha domain; Region: 3-alpha; pfam03475 536230002103 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 536230002104 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 536230002105 inhibitor site; inhibition site 536230002106 active site 536230002107 dimer interface; other site 536230002108 catalytic residue; other site 536230002109 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 536230002110 intersubunit interface; other site 536230002111 active site 536230002112 Zn2+ binding site; other site 536230002113 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 536230002114 non-specific DNA binding site; other site 536230002115 salt bridge; other site 536230002116 sequence-specific DNA binding site; other site 536230002117 Cupin domain; Region: Cupin_2; cl09118 536230002118 Predicted transcriptional regulator [Transcription]; Region: COG2378 536230002119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002120 putative transposase OrfB; Reviewed; Region: PHA02517 536230002121 Integrase core domain; Region: rve; cl01316 536230002122 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 536230002123 Phage integrase family; Region: Phage_integrase; pfam00589 536230002124 DNA binding site 536230002125 Int/Topo IB signature motif; other site 536230002126 active site 536230002127 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 536230002128 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 536230002129 Domain of unknown function (DUF932); Region: DUF932; cl12129 536230002130 ParB-like nuclease domain; Region: ParBc; cl02129 536230002131 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 536230002132 Protein of unknown function (DUF736); Region: DUF736; cl02303 536230002133 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 536230002134 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 536230002135 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 536230002136 Replication initiator protein A; Region: RPA; cl02339 536230002137 ParA-like protein; Provisional; Region: PHA02518 536230002138 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 536230002139 P-loop; other site 536230002140 Magnesium ion binding site; other site 536230002141 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 536230002142 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 536230002143 Peptidase S26; Region: Peptidase_S26; pfam10502 536230002144 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 536230002145 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 536230002146 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)...; Region: Rieske; cl00938 536230002147 iron-sulfur cluster; other site 536230002148 [2Fe-2S] cluster binding site; other site 536230002149 Ring hydroxylating alpha subunit (catalytic domain). This CD includes the catalytic domain (alpha) of aromatic-ring-hydroxylating dioxygenase systems of eubacteria. Eubacterial ring hydroxylating dioxygenases are multicomponent 1,2-dioxygenase...; Region: Ring_hydroxylating_alpha; cd00680 536230002150 interface residues; other site 536230002151 active site 536230002152 substrate binding pocket; other site 536230002153 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 536230002154 inter-subunit interface; other site 536230002155 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 536230002156 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 536230002157 dimer interface; other site 536230002158 active site 536230002159 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 536230002160 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 536230002161 active site 536230002162 dimer interface; other site 536230002163 metal-binding site 536230002164 benzoate transport; Region: 2A0115; TIGR00895 536230002165 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230002166 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536230002167 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002168 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 536230002169 dimerization interface; other site 536230002170 substrate binding pocket; other site 536230002171 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 536230002172 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA...; Region: TraG_VirD4; cd01126 536230002173 Walker A motif; other site 536230002174 ATP binding site; other site 536230002175 Walker B motif; other site 536230002176 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 536230002177 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 536230002178 ATP binding site; other site 536230002179 Walker A motif; other site 536230002180 hexamer interface; other site 536230002181 Walker B motif; other site 536230002182 TrbC/VIRB2 family; Region: TrbC; cl01583 536230002183 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 536230002184 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 536230002185 VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 536230002186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230002187 Walker A motif; other site 536230002188 ATP binding site; other site 536230002189 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230002190 Walker B; other site 536230002191 D-loop; other site 536230002192 H-loop/switch region; other site 536230002193 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 536230002194 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 536230002195 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 536230002196 VirB8 protein; Region: VirB8; cl01500 536230002197 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 536230002198 VirB7 interaction site; other site 536230002199 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 536230002200 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 536230002201 Coenzyme A transferase; Region: CoA_trans; cl00773 536230002202 Coenzyme A transferase; Region: CoA_trans; cl00773 536230002203 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230002204 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 536230002205 FMN binding site; other site 536230002206 substrate binding site; other site 536230002207 putative catalytic residue; other site 536230002208 benzoate transport; Region: 2A0115; TIGR00895 536230002209 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230002210 putative substrate translocation pore; other site 536230002211 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536230002212 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 536230002213 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 536230002214 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230002215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002217 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 536230002218 putative effector binding pocket; other site 536230002219 dimerization interface; other site 536230002220 putative transposase OrfB; Reviewed; Region: PHA02517 536230002221 Integrase core domain; Region: rve; cl01316 536230002222 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 536230002223 benzoate transport; Region: 2A0115; TIGR00895 536230002224 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230002225 putative substrate translocation pore; other site 536230002226 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230002227 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16...; Region: OM_channels; cl00284 536230002228 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 536230002229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230002230 ABC transporter signature motif; other site 536230002231 Walker B; other site 536230002232 D-loop; other site 536230002233 H-loop/switch region; other site 536230002234 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 536230002235 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230002236 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 536230002237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002238 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 536230002239 substrate binding site; other site 536230002240 dimerization interface; other site 536230002241 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 536230002242 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230002243 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230002244 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 536230002245 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 536230002246 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 536230002247 Active Sites; active site 536230002248 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 536230002249 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 536230002250 Active Sites; active site 536230002251 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 536230002252 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 536230002253 CysD dimerization site; other site 536230002254 G1 box; other site 536230002255 putative GEF interaction site; other site 536230002256 GTP/Mg2+ binding site; other site 536230002257 Switch I region; other site 536230002258 G2 box; other site 536230002259 G3 box; other site 536230002260 Switch II region; other site 536230002261 G4 box; other site 536230002262 G5 box; other site 536230002263 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...; Region: CysN_NodQ_II; cd03695 536230002264 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...; Region: CysN_NoDQ_III; cd04095 536230002265 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 536230002266 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a...; Region: CbiX_SirB_N; cd03416 536230002267 putative active site; other site 536230002268 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 536230002269 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 536230002270 leucyl aminopeptidase; Provisional; Region: PRK00913 536230002271 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 536230002272 interface (dimer of trimers); other site 536230002273 Substrate-binding/catalytic site; other site 536230002274 Zn-binding sites; other site 536230002275 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 536230002276 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 536230002277 Cytochrome c; Region: Cytochrom_C; cl11414 536230002278 Dehydratase family; Region: ILVD_EDD; cl00340 536230002279 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 536230002280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002281 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 536230002282 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 536230002283 putative dimerization interface; other site 536230002284 putative substrate binding pocket; other site 536230002285 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 536230002286 Protein of unknown function (DUF541); Region: SIMPL; cl01077 536230002287 Protein of unknown function DUF55; Region: DUF55; cl00728 536230002288 Cell division protein ZapA; Region: ZapA; cl01146 536230002289 seryl-tRNA synthetase; Provisional; Region: PRK05431 536230002290 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 536230002291 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 536230002292 N-terminal plug; other site 536230002293 ligand-binding site; other site 536230002294 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 536230002295 ABC-ATPase subunit interface; other site 536230002296 dimer interface; other site 536230002297 putative PBP binding regions; other site 536230002298 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536230002299 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536230002300 Walker A/P-loop; other site 536230002301 ATP binding site; other site 536230002302 Q-loop/lid; other site 536230002303 ABC transporter signature motif; other site 536230002304 Walker B; other site 536230002305 D-loop; other site 536230002306 H-loop/switch region; other site 536230002307 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 536230002308 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 536230002309 putative dimer interface; other site 536230002310 active site pocket 536230002311 putative cataytic base; other site 536230002312 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 536230002313 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 536230002314 catalytic core; other site 536230002315 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...; Region: BtuF; cd01144 536230002316 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 536230002317 cobalamin binding residues; other site 536230002318 putative BtuC binding residues; other site 536230002319 dimer interface; other site 536230002320 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 536230002321 pyridoxal 5'-phosphate binding pocket; other site 536230002322 CobD/Cbib protein; Region: CobD_Cbib; cl00561 536230002323 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 536230002324 homotrimer interface; other site 536230002325 Walker A motif; other site 536230002326 GTP binding site; other site 536230002327 Walker B motif; other site 536230002328 cobyric acid synthase; Provisional; Region: PRK00784 536230002329 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230002330 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230002331 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 536230002332 catalytic triad; other site 536230002333 DoxX; Region: DoxX; cl00976 536230002334 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 536230002335 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 536230002336 P-loop; other site 536230002337 Magnesium ion binding site; other site 536230002338 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 536230002339 tetramerization interface; other site 536230002340 active site 536230002341 pantoate--beta-alanine ligase; Region: panC; TIGR00018 536230002342 Pantoate-beta-alanine ligase; Region: PanC; cd00560 536230002343 active site 536230002344 ATP-binding site; other site 536230002345 pantoate-binding site; other site 536230002346 ScpA/B protein; Region: ScpA_ScpB; cl00598 536230002347 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 536230002348 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 536230002349 Surface antigen; Region: Bac_surface_Ag; cl03097 536230002350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 536230002351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 536230002352 Family of unknown function (DUF490); Region: DUF490; pfam04357 536230002353 O-methyltransferase; Region: Methyltransf_2; pfam00891 536230002354 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 536230002355 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 536230002356 active site 536230002357 HIGH motif; other site 536230002358 KMSKS motif; other site 536230002359 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 536230002360 tRNA binding surface; other site 536230002361 anticodon binding site; other site 536230002362 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 536230002363 dimer interface; other site 536230002364 putative tRNA-binding site; other site 536230002365 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230002366 ligand binding site; other site 536230002367 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 536230002368 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 536230002369 E-class dimer interface; other site 536230002370 P-class dimer interface; other site 536230002371 active site 536230002372 Cu2+ binding site; other site 536230002373 Zn2+ binding site; other site 536230002374 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 536230002375 trimer interface; other site 536230002376 active site 536230002377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 536230002378 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 536230002379 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 536230002380 pyridoxal 5'-phosphate binding pocket; other site 536230002381 catalytic residue; other site 536230002382 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536230002383 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 536230002384 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 536230002385 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536230002386 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 536230002387 motif II; other site 536230002388 argininosuccinate lyase; Provisional; Region: PRK00855 536230002389 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230002390 active sites 536230002391 tetramer interface; other site 536230002392 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536230002393 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230002394 Spore Coat Protein U domain; Region: SCPU; cl02253 536230002395 Spore Coat Protein U domain; Region: SCPU; cl02253 536230002396 Spore Coat Protein U domain; Region: SCPU; cl02253 536230002397 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 536230002398 S-adenosylmethionine binding site; other site 536230002399 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230002400 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 536230002401 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 536230002402 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; cl03189 536230002403 domain interfaces; other site 536230002404 active site 536230002405 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 536230002406 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations...; Region: HemD; cd06578 536230002407 active site 536230002408 HemX; Region: HemX; pfam04375 536230002409 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 536230002410 HemY protein N-terminus; Region: HemY_N; pfam07219 536230002411 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 536230002412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230002413 putative substrate translocation pore; other site 536230002414 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 536230002415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002416 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 536230002417 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 536230002418 NAD(P) binding site; other site 536230002419 catalytic residues; other site 536230002420 catalytic residues; other site 536230002421 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 536230002422 dimer interface; other site 536230002423 substrate binding site; other site 536230002424 metal binding sites; metal-binding site 536230002425 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 536230002426 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 536230002427 FemAB family; Region: FemAB; cl11444 536230002428 NAD synthetase; Provisional; Region: PRK13981 536230002429 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 536230002430 multimer interface; other site 536230002431 active site 536230002432 catalytic triad; other site 536230002433 protein interface 1; other site 536230002434 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to...; Region: NAD_synthase; cd00553 536230002435 homodimer interface; other site 536230002436 NAD binding pocket; other site 536230002437 ATP binding pocket; other site 536230002438 Mg binding site; other site 536230002439 active-site loop 536230002440 Nitrogen regulatory protein P-II; Region: P-II; cl00412 536230002441 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230002442 trimer interface; other site 536230002443 eyelet of channel; other site 536230002444 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 536230002445 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 536230002446 Walker A/P-loop; other site 536230002447 ATP binding site; other site 536230002448 Q-loop/lid; other site 536230002449 ABC transporter signature motif; other site 536230002450 Walker B; other site 536230002451 D-loop; other site 536230002452 H-loop/switch region; other site 536230002453 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230002454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230002455 dimer interface; other site 536230002456 conserved gate region; other site 536230002457 putative PBP binding loops; other site 536230002458 ABC-ATPase subunit interface; other site 536230002459 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230002460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230002461 dimer interface; other site 536230002462 conserved gate region; other site 536230002463 putative PBP binding loops; other site 536230002464 ABC-ATPase subunit interface; other site 536230002465 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 536230002466 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230002467 substrate binding pocket; other site 536230002468 membrane-bound complex binding site; other site 536230002469 hinge residues; other site 536230002470 Pirin-related protein [General function prediction only]; Region: COG1741 536230002471 Cupin domain; Region: Cupin_2; cl09118 536230002472 osmolarity response regulator; Provisional; Region: ompR; PRK09468 536230002473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230002474 active site 536230002475 phosphorylation site 536230002476 intermolecular recognition site; other site 536230002477 dimerization interface; other site 536230002478 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230002479 DNA binding site 536230002480 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 536230002481 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230002482 dimer interface; other site 536230002483 phosphorylation site 536230002484 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 536230002485 ATP binding site; other site 536230002486 Mg2+ binding site; other site 536230002487 G-X-G motif; other site 536230002488 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 536230002489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230002490 dimer interface; other site 536230002491 conserved gate region; other site 536230002492 putative PBP binding loops; other site 536230002493 ABC-ATPase subunit interface; other site 536230002494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230002495 dimer interface; other site 536230002496 conserved gate region; other site 536230002497 putative PBP binding loops; other site 536230002498 ABC-ATPase subunit interface; other site 536230002499 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230002500 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 536230002501 Walker A/P-loop; other site 536230002502 ATP binding site; other site 536230002503 Q-loop/lid; other site 536230002504 ABC transporter signature motif; other site 536230002505 Walker B; other site 536230002506 D-loop; other site 536230002507 H-loop/switch region; other site 536230002508 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl01965 536230002509 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 536230002510 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is...; Region: GT1_TPS; cd03788 536230002511 active site 536230002512 homotetramer interface; other site 536230002513 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 536230002514 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230002515 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230002516 putative substrate translocation pore; other site 536230002517 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 536230002518 substrate binding site; other site 536230002519 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 536230002520 secondary substrate binding site; other site 536230002521 primary substrate binding site; other site 536230002522 inhibition loop; other site 536230002523 dimerization interface; other site 536230002524 Beta-lactamase; Region: Beta-lactamase; cl01009 536230002525 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 536230002526 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 536230002527 haemagglutination activity domain; Region: Haemagg_act; cl05436 536230002528 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 536230002529 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 536230002530 Surface antigen; Region: Bac_surface_Ag; cl03097 536230002531 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 536230002532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 536230002533 Transposase; Region: Transposase_9; pfam01548 536230002534 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 536230002535 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 536230002536 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 536230002537 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 536230002538 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 536230002539 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230002540 catalytic residues; other site 536230002541 catalytic nucleophile; other site 536230002542 Presynaptic Site I dimer interface; other site 536230002543 Synaptic Antiparallel dimer interface; other site 536230002544 Synaptic Flat tetramer interface; other site 536230002545 Synaptic Site I dimer interface; other site 536230002546 DNA binding site 536230002547 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 536230002548 DNA-binding interface; DNA binding site 536230002549 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 536230002550 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 536230002551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 536230002552 Domain of unknown function (DUF927); Region: DUF927; cl12098 536230002553 integrase; Provisional; Region: PRK09692 536230002554 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 536230002555 Int/Topo IB signature motif; other site 536230002556 active site 536230002557 putative transposase OrfB; Reviewed; Region: PHA02517 536230002558 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 536230002559 rRNA binding site; other site 536230002560 predicted 30S ribosome binding site; other site 536230002561 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230002562 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230002563 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230002564 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 536230002565 Rubredoxin [Energy production and conversion]; Region: COG1773 536230002566 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They...; Region: rubredoxin; cd00730 536230002567 iron binding site; other site 536230002568 ABC transporter ATPase component; Reviewed; Region: PRK11147 536230002569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230002570 Walker A/P-loop; other site 536230002571 ATP binding site; other site 536230002572 Q-loop/lid; other site 536230002573 ABC transporter signature motif; other site 536230002574 Walker B; other site 536230002575 D-loop; other site 536230002576 H-loop/switch region; other site 536230002577 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230002578 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 536230002579 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 536230002580 ATP binding site; other site 536230002581 Mg2+ binding site; other site 536230002582 G-X-G motif; other site 536230002583 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 536230002584 anchoring element; other site 536230002585 dimer interface; other site 536230002586 ATP binding site; other site 536230002587 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 536230002588 active site 536230002589 metal-binding site 536230002590 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536230002591 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 536230002592 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 536230002593 CAP-like domain; other site 536230002594 active site 536230002595 primary dimer interface; other site 536230002596 Copper resistance protein D; Region: CopD; cl00563 536230002597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002599 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 536230002600 dimerization interface; other site 536230002601 Predicted membrane protein [Function unknown]; Region: COG4125 536230002602 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 536230002603 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 536230002604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230002606 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 536230002607 dimerization interface; other site 536230002608 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230002609 allantoate amidohydrolase; Reviewed; Region: PRK12893 536230002610 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 536230002611 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 536230002612 Chromate transporter; Region: Chromate_transp; cl00902 536230002613 Chromate transporter; Region: Chromate_transp; cl00902 536230002614 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230002615 metal-binding site 536230002616 active site 536230002617 I-site; other site 536230002618 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 536230002619 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 536230002620 hypothetical protein; Provisional; Region: PRK10281 536230002621 hypothetical protein; Provisional; Region: PRK10281 536230002622 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 536230002623 homotrimer interaction site; other site 536230002624 putative active site; other site 536230002625 aspartate aminotransferase; Provisional; Region: PRK06108 536230002626 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 536230002627 pyridoxal 5'-phosphate binding site; other site 536230002628 homodimer interface; other site 536230002629 catalytic residue; other site 536230002630 EamA-like transporter family; Region: EamA; cl01037 536230002631 EamA-like transporter family; Region: EamA; cl01037 536230002632 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 536230002633 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230002634 DNA binding site 536230002635 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 536230002636 pyridoxal 5'-phosphate binding site; other site 536230002637 homodimer interface; other site 536230002638 catalytic residue; other site 536230002639 heat shock protein 90; Provisional; Region: PRK05218 536230002640 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 536230002641 Chorismate lyase; Region: Chor_lyase; cl01230 536230002642 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 536230002643 spermidine synthase; Provisional; Region: PRK04457 536230002644 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230002645 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 536230002646 Sodium:solute symporter family; Region: SSF; cl00456 536230002647 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 536230002648 dimer interface; other site 536230002649 Transaldolases including both TalA and TalB. The enzyme catalyses the reversible transfer of a dyhydroxyacetone moiety, derived from fructose-6-phosphate to erythrose-4-phosphate yielding sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate. The...; Region: Transaldolase_TalAB; cd00957 536230002650 active site 536230002651 dimer interface; other site 536230002652 catalytic residue; other site 536230002653 Permease family; Region: Xan_ur_permease; cl00967 536230002654 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 536230002655 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 536230002656 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 536230002657 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230002658 Walker A motif; other site 536230002659 ATP binding site; other site 536230002660 Walker B motif; other site 536230002661 arginine finger; other site 536230002662 Cytochrome c; Region: Cytochrom_C; cl11414 536230002663 Cytochrome c; Region: Cytochrom_C; cl11414 536230002664 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 536230002665 EamA-like transporter family; Region: EamA; cl01037 536230002666 endonuclease III; Provisional; Region: PRK10702 536230002667 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230002668 minor groove reading motif; other site 536230002669 helix-hairpin-helix signature motif; other site 536230002670 substrate binding pocket; other site 536230002671 active site 536230002672 ferredoxin; Provisional; Region: PRK06991 536230002673 Putative Fe-S cluster; Region: FeS; pfam04060 536230002674 4Fe-4S binding domain; Region: Fer4; pfam00037 536230002675 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 536230002676 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230002677 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 536230002678 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230002679 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 536230002680 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 536230002681 3-carboxy-cis,cis-muconate lactonizing enzyme; Region: Muc_lac_enz; pfam10282 536230002682 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 536230002683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230002684 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 536230002685 META domain; Region: META; cl01245 536230002686 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 536230002687 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 536230002688 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230002689 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 536230002690 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 536230002691 DEAD-like helicases superfamily; Region: DEXDc; smart00487 536230002692 ATP binding site; other site 536230002693 Mg++ binding site; other site 536230002694 motif III; other site 536230002695 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 536230002696 nucleotide binding region; other site 536230002697 ATP-binding site; other site 536230002698 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230002699 HIGH motif; other site 536230002700 active site 536230002701 nucleotide binding site; other site 536230002702 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230002703 KMSKS motif; other site 536230002704 rhodanese superfamily protein; Provisional; Region: PRK05320 536230002705 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 536230002706 active site residue 536230002707 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 536230002708 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 536230002709 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 536230002710 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli...; Region: DnaE_OBF; cd04485 536230002711 generic binding surface II; other site 536230002712 generic binding surface I; other site 536230002713 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 536230002714 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 536230002715 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 536230002716 Walker A/P-loop; other site 536230002717 ATP binding site; other site 536230002718 Q-loop/lid; other site 536230002719 ABC transporter signature motif; other site 536230002720 Walker B; other site 536230002721 D-loop; other site 536230002722 H-loop/switch region; other site 536230002723 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 536230002724 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230002725 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 536230002726 putative active site; other site 536230002727 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230002728 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 536230002729 putative ADP-binding pocket; other site 536230002730 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230002731 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 536230002732 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 536230002733 putative active site; other site 536230002734 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 536230002735 putative metal binding site; other site 536230002736 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 536230002737 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230002738 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 536230002739 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 536230002740 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230002741 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 536230002742 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 536230002743 Pectinacetylesterase; Region: PAE; pfam03283 536230002744 Permease family; Region: Xan_ur_permease; cl00967 536230002745 ribonuclease G; Provisional; Region: PRK11712 536230002746 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 536230002747 homodimer interface; other site 536230002748 oligonucleotide binding site; other site 536230002749 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 536230002750 active site 536230002751 dimer interface; other site 536230002752 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 536230002753 Domain of unknown function DUF143; Region: DUF143; cl00519 536230002754 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 536230002755 active site 536230002756 substrate binding site; other site 536230002757 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: PRK06973 536230002758 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 536230002759 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 536230002760 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 536230002761 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230002762 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 536230002763 Domain of unknown function DUF28; Region: DUF28; cl00361 536230002764 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230002765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002766 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 536230002767 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 536230002768 active site 536230002769 dimer interfaces; other site 536230002770 catalytic residues; other site 536230002771 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 536230002772 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 536230002773 NADP binding site; other site 536230002774 dimer interface; other site 536230002775 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 536230002776 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 536230002777 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 536230002778 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536230002779 K+-transporting ATPase, c chain; Region: KdpC; cl00944 536230002780 sensor protein KdpD; Provisional; Region: PRK10490 536230002781 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 536230002782 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 536230002783 Ligand Binding Site; other site 536230002784 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230002785 dimer interface; other site 536230002786 phosphorylation site 536230002787 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 536230002788 ATP binding site; other site 536230002789 Mg2+ binding site; other site 536230002790 G-X-G motif; other site 536230002791 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 536230002792 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230002793 active site 536230002794 phosphorylation site 536230002795 intermolecular recognition site; other site 536230002796 dimerization interface; other site 536230002797 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230002798 DNA binding site 536230002799 Domain of unknown function (DUF333); Region: DUF333; pfam03891 536230002800 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 536230002801 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 536230002802 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 536230002803 Predicted permease; Region: FtsX; cl11418 536230002804 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...; Region: Trunc_globin; cd00454 536230002805 apolar tunnel; other site 536230002806 heme binding site; other site 536230002807 dimerization interface; other site 536230002808 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 536230002809 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 536230002810 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 536230002811 amidase; Provisional; Region: PRK07042 536230002812 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 536230002813 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230002814 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 536230002815 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 536230002816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002817 short chain dehydrogenase; Provisional; Region: PRK06123 536230002818 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 536230002819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230002820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230002821 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 536230002822 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...; Region: GT1_like_2; cd03814 536230002823 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase; Region: PLN02871 536230002824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 536230002825 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 536230002826 putative active site; other site 536230002827 putative metal binding site; other site 536230002828 RDD family; Region: RDD; cl00746 536230002829 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 536230002830 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 536230002831 RNA polymerase factor sigma-70; Validated; Region: PRK09047 536230002832 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 536230002833 DNA binding residues 536230002834 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 536230002835 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230002836 PYR/PP interface; other site 536230002837 dimer interface; other site 536230002838 TPP binding site; other site 536230002839 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230002840 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 536230002841 TPP-binding site; other site 536230002842 dimer interface; other site 536230002843 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 536230002844 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 536230002845 putative valine binding site; other site 536230002846 dimer interface; other site 536230002847 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 536230002848 ketol-acid reductoisomerase; Provisional; Region: PRK05479 536230002849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002850 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 536230002851 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 536230002852 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 536230002853 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 536230002854 2-isopropylmalate synthase; Validated; Region: PRK00915 536230002855 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 536230002856 active site 536230002857 catalytic residues; other site 536230002858 metal-binding site 536230002859 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 536230002860 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 536230002861 Permease family; Region: Xan_ur_permease; cl00967 536230002862 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 536230002863 active site clefts 536230002864 zinc binding site; other site 536230002865 dimer interface; other site 536230002866 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230002867 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 536230002868 putative ligand binding site; other site 536230002869 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole...; Region: Ribosomal_S15p_S13e; cd00353 536230002870 16S/18S rRNA binding site; other site 536230002871 S13e-L30e interaction site; other site 536230002872 25S rRNA binding site; other site 536230002873 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 536230002874 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 536230002875 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 536230002876 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 536230002877 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 536230002878 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 536230002879 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 536230002880 putative nucleic acid binding region; other site 536230002881 G-X-X-G motif; other site 536230002882 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 536230002883 RNA binding site; other site 536230002884 domain interface; other site 536230002885 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 536230002886 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 536230002887 NAD(P) binding site; other site 536230002888 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 536230002889 substrate binding site; other site 536230002890 dimer interface; other site 536230002891 catalytic triad; other site 536230002892 Preprotein translocase SecG subunit; Region: SecG; cl09123 536230002893 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 536230002894 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 536230002895 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 536230002896 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 536230002897 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 536230002898 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 536230002899 putative dimer interface; other site 536230002900 [2Fe-2S] cluster binding site; other site 536230002901 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 536230002902 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 536230002903 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 536230002904 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 536230002905 NADH dehydrogenase subunit G; Validated; Region: PRK09129 536230002906 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 536230002907 catalytic loop; other site 536230002908 iron binding site; other site 536230002909 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 536230002910 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...; Region: MopB_NDH-1_NuoG2; cd02772 536230002911 NADH dehydrogenase; Region: NADHdh; cl00469 536230002912 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 536230002913 4Fe-4S binding domain; Region: Fer4; pfam00037 536230002914 NADH dehydrogenase subunit J; Provisional; Region: PRK06638 536230002915 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 536230002916 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 536230002917 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 536230002918 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 536230002919 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 536230002920 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 536230002921 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 536230002922 NADH dehydrogenase subunit N; Provisional; Region: PRK05777 536230002923 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 536230002924 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 536230002925 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 536230002926 dimer interface; other site 536230002927 ADP-ribose binding site; other site 536230002928 active site 536230002929 nudix motif; other site 536230002930 metal-binding site 536230002931 Protein of unknown function (DUF1178); Region: DUF1178; cl02196 536230002932 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 536230002933 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 536230002934 FAD binding site; other site 536230002935 substrate binding site; other site 536230002936 catalytic base; other site 536230002937 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 536230002938 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 536230002939 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 536230002940 active site 536230002941 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 536230002942 putative active site; other site 536230002943 putative catalytic site; other site 536230002944 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 536230002945 putative active site; other site 536230002946 putative catalytic site; other site 536230002947 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 536230002948 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230002949 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 536230002950 FAD binding site; other site 536230002951 substrate binding site; other site 536230002952 catalytic base; other site 536230002953 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 536230002954 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: ACAD10_11_like; cd05154 536230002955 putative active site; other site 536230002956 putative substrate binding site; other site 536230002957 ATP binding site; other site 536230002958 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 536230002959 catalytic core; other site 536230002960 enoyl-CoA hydratase; Provisional; Region: PRK05980 536230002961 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230002962 substrate binding site; other site 536230002963 oxyanion hole (OAH) forming residues; other site 536230002964 trimer interface; other site 536230002965 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cl11392 536230002966 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536230002967 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 536230002968 C-terminal domain interface; other site 536230002969 GSH binding site (G-site); other site 536230002970 dimer interface; other site 536230002971 Glutathione S-transferase (GST) family, C-terminal alpha helical domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and...; Region: GST_C_family; cd00299 536230002972 N-terminal domain interface; other site 536230002973 dimer interface; other site 536230002974 substrate binding pocket (H-site); other site 536230002975 putative aminotransferase; Validated; Region: PRK09082 536230002976 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 536230002977 pyridoxal 5'-phosphate binding site; other site 536230002978 homodimer interface; other site 536230002979 catalytic residue; other site 536230002980 PIN domain; Region: PIN; cl09128 536230002981 Protein of unknown function (DUF328); Region: DUF328; cl01143 536230002982 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 536230002983 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 536230002984 active site 536230002985 Zn-binding site; other site 536230002986 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 536230002987 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230002988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230002989 active site 536230002990 phosphorylation site 536230002991 intermolecular recognition site; other site 536230002992 dimerization interface; other site 536230002993 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230002994 DNA binding residues 536230002995 dimerization interface; other site 536230002996 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 536230002997 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536230002998 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536230002999 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate...; Region: APP_MetAP; cl00279 536230003000 active site 536230003001 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230003002 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230003003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230003004 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 536230003005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003006 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 536230003007 L-serine binding site; other site 536230003008 ACT domain interface; other site 536230003009 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 536230003010 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 536230003011 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230003012 substrate binding pocket; other site 536230003013 membrane-bound complex binding site; other site 536230003014 hinge residues; other site 536230003015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 536230003016 Histidine kinase; Region: HisKA_3; pfam07730 536230003017 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 536230003018 ATP binding site; other site 536230003019 Mg2+ binding site; other site 536230003020 G-X-G motif; other site 536230003021 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 536230003022 catalytic motif; other site 536230003023 Catalytic residue; other site 536230003024 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 536230003025 Cytochrome c; Region: Cytochrom_C; cl11414 536230003026 Cytochrome c; Region: Cytochrom_C; cl11414 536230003027 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230003028 Cytochrome c; Region: Cytochrom_C; cl11414 536230003029 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 536230003030 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 536230003031 Low-spin heme binding site; other site 536230003032 Subunit I/II interface; other site 536230003033 Putative Q-pathway; other site 536230003034 Putative D-pathway homolog; other site 536230003035 Putative alternate electron transfer pathway; other site 536230003036 Putative water exit pathway; other site 536230003037 Binuclear center (active site); other site 536230003038 Putative K-pathway homolog; other site 536230003039 Putative proton exit pathway; other site 536230003040 Subunit I/IIa interface; other site 536230003041 Electron transfer pathway; other site 536230003042 Cytochrome c; Region: Cytochrom_C; cl11414 536230003043 Cytochrome c; Region: Cytochrom_C; cl11414 536230003044 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 536230003045 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 536230003046 putative active site; other site 536230003047 heme pocket; other site 536230003048 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230003049 metal-binding site 536230003050 active site 536230003051 I-site; other site 536230003052 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 536230003053 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 536230003054 catalytic triad; other site 536230003055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003056 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 536230003057 Protein export membrane protein; Region: SecD_SecF; cl14618 536230003058 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 536230003059 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 536230003060 Protein export membrane protein; Region: SecD_SecF; cl14618 536230003061 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 536230003062 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003063 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230003064 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230003065 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 536230003066 Predicted transcriptional regulator [Transcription]; Region: COG1959 536230003067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003069 Cysteine dioxygenase type I; Region: CDO_I; cl02350 536230003070 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230003071 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230003073 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 536230003074 Walker A/P-loop; other site 536230003075 ATP binding site; other site 536230003076 Q-loop/lid; other site 536230003077 ABC transporter signature motif; other site 536230003078 Walker B; other site 536230003079 D-loop; other site 536230003080 H-loop/switch region; other site 536230003081 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 536230003082 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230003083 ABC-ATPase subunit interface; other site 536230003084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230003085 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 536230003086 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230003087 Amino acid permease; Region: AA_permease; pfam00324 536230003088 Predicted membrane protein [Function unknown]; Region: COG1289 536230003089 hypothetical membrane protein, TIGR01666; Region: YCCS 536230003090 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 536230003091 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 536230003092 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 536230003093 UvrD/REP helicase; Region: UvrD-helicase; cl14126 536230003094 UvrD/REP helicase; Region: UvrD-helicase; cl14126 536230003095 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 536230003096 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 536230003097 RF-1 domain; Region: RF-1; cl02875 536230003098 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 536230003099 EamA-like transporter family; Region: EamA; cl01037 536230003100 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536230003101 EamA-like transporter family; Region: EamA; cl01037 536230003102 ThiC family; Region: ThiC; cl08031 536230003103 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 536230003104 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 536230003105 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 536230003106 Moco binding site; other site 536230003107 metal coordination site; other site 536230003108 EamA-like transporter family; Region: EamA; cl01037 536230003109 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003110 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230003111 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230003112 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230003113 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536230003114 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 536230003115 active site 536230003116 metal-binding site 536230003117 hexamer interface; other site 536230003118 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536230003119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230003120 Walker A/P-loop; other site 536230003121 ATP binding site; other site 536230003122 Q-loop/lid; other site 536230003123 ABC transporter signature motif; other site 536230003124 Walker B; other site 536230003125 D-loop; other site 536230003126 H-loop/switch region; other site 536230003127 TOBE domain; Region: TOBE_2; cl01440 536230003128 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230003129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230003130 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 536230003131 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230003132 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230003133 DNA binding site 536230003134 domain linker motif; other site 536230003135 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 536230003136 putative dimerization interface; other site 536230003137 putative ligand binding site; other site 536230003138 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 536230003139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230003140 metal-binding site 536230003141 active site 536230003142 I-site; other site 536230003143 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 536230003144 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; cl09233 536230003145 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 536230003146 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 536230003147 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230003148 DNA binding site 536230003149 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 536230003150 pyridoxal 5'-phosphate binding site; other site 536230003151 homodimer interface; other site 536230003152 catalytic residue; other site 536230003153 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230003154 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003155 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 536230003156 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate...; Region: GFAT; cd00714 536230003157 glutaminase active site; other site 536230003158 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 536230003159 dimer interface; other site 536230003160 active site 536230003161 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 536230003162 dimer interface; other site 536230003163 active site 536230003164 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 536230003165 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 536230003166 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 536230003167 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003168 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 536230003169 putative effector binding pocket; other site 536230003170 putative dimerization interface; other site 536230003171 short chain dehydrogenase; Provisional; Region: PRK12744 536230003172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003173 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 536230003174 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 536230003175 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 536230003176 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230003177 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230003178 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 536230003179 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 536230003180 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230003181 DNA binding site 536230003182 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 536230003183 pyridoxal 5'-phosphate binding site; other site 536230003184 homodimer interface; other site 536230003185 catalytic residue; other site 536230003186 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 536230003187 putative dimer interface; other site 536230003188 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536230003189 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 536230003190 putative dimer interface; other site 536230003191 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 536230003192 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 536230003193 active site 536230003194 substrate-binding site; other site 536230003195 metal-binding site 536230003196 GTP binding site; other site 536230003197 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 536230003198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003199 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230003200 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003201 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 536230003202 dimerization interface; other site 536230003203 Malonate transporter MadL subunit; Region: MadL; cl04273 536230003204 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 536230003205 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 536230003206 Coenzyme A transferase; Region: CoA_trans; cl00773 536230003207 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 536230003208 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 536230003209 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 536230003210 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 536230003211 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 536230003212 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 536230003213 Acyl transferase domain; Region: Acyl_transf_1; cl08282 536230003214 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 536230003215 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 536230003216 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 536230003217 GST_C family, unknown subfamily 6; 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_C_6; cd03205 536230003218 putative substrate binding pocket (H-site); other site 536230003219 putative N-terminal domain interface; other site 536230003220 proline/glycine betaine transporter; Provisional; Region: PRK10642 536230003221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003222 putative substrate translocation pore; other site 536230003223 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 536230003224 Proteobacterial; Region: dnaQ_proteo; TIGR01406 536230003225 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 536230003226 active site 536230003227 substrate binding site; other site 536230003228 catalytic site; other site 536230003229 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 536230003230 RNA/DNA hybrid binding site; other site 536230003231 active site 536230003232 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230003233 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230003234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230003235 MLTD_N; Region: MLTD_N; pfam06474 536230003236 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 536230003237 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 536230003238 N-acetyl-D-glucosamine binding site; other site 536230003239 catalytic residue; other site 536230003240 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 536230003241 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003242 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230003243 putative substrate translocation pore; other site 536230003244 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230003245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230003246 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 536230003247 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 536230003248 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 536230003249 catalytic site; other site 536230003250 subunit interface; other site 536230003251 LysE type translocator; Region: LysE; cl00565 536230003252 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 536230003253 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536230003254 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230003255 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 536230003256 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536230003257 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230003258 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 536230003259 IMP binding site; other site 536230003260 dimer interface; other site 536230003261 interdomain contacts; other site 536230003262 partial ornithine binding site; other site 536230003263 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 536230003264 domain; Region: GreA_GreB_N; pfam03449 536230003265 C-term; Region: GreA_GreB; pfam01272 536230003266 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 536230003267 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230003268 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 536230003269 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230003270 Walker A motif; other site 536230003271 ATP binding site; other site 536230003272 Walker B motif; other site 536230003273 arginine finger; other site 536230003274 Peptidase family M41; Region: Peptidase_M41; pfam01434 536230003275 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 536230003276 substrate binding pocket; other site 536230003277 dimer interface; other site 536230003278 inhibitor binding site; inhibition site 536230003279 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 536230003280 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 536230003281 active site 536230003282 substrate binding site; other site 536230003283 metal-binding site 536230003284 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 536230003285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230003286 dimer interface; other site 536230003287 conserved gate region; other site 536230003288 putative PBP binding loops; other site 536230003289 ABC-ATPase subunit interface; other site 536230003290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230003291 dimer interface; other site 536230003292 conserved gate region; other site 536230003293 putative PBP binding loops; other site 536230003294 ABC-ATPase subunit interface; other site 536230003295 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 536230003296 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 536230003297 Walker A/P-loop; other site 536230003298 ATP binding site; other site 536230003299 Q-loop/lid; other site 536230003300 ABC transporter signature motif; other site 536230003301 Walker B; other site 536230003302 D-loop; other site 536230003303 H-loop/switch region; other site 536230003304 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 536230003305 PhoU domain; Region: PhoU; pfam01895 536230003306 PhoU domain; Region: PhoU; pfam01895 536230003307 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 536230003308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230003309 active site 536230003310 phosphorylation site 536230003311 intermolecular recognition site; other site 536230003312 dimerization interface; other site 536230003313 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230003314 DNA binding site 536230003315 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 536230003316 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230003317 dimer interface; other site 536230003318 phosphorylation site 536230003319 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 536230003320 ATP binding site; other site 536230003321 Mg2+ binding site; other site 536230003322 G-X-G motif; other site 536230003323 polyphosphate kinase; Provisional; Region: PRK05443 536230003324 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 536230003325 active site 536230003326 signature motif; other site 536230003327 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 536230003328 exopolyphosphatase; Region: exo_poly_only; TIGR03706 536230003329 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 536230003330 active site 536230003331 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 536230003332 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 536230003333 catalytic core; other site 536230003334 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl00357 536230003335 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 536230003336 MatE; Region: MatE; pfam01554 536230003337 MatE; Region: MatE; pfam01554 536230003338 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 536230003339 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 536230003340 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230003341 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 536230003342 putative peptidoglycan binding site; other site 536230003343 Peptidase family M23; Region: Peptidase_M23; pfam01551 536230003344 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 536230003345 Aldose 1-epimerase; Region: Aldose_epim; cl00476 536230003346 Bacitracin resistance protein BacA; Region: BacA; cl00858 536230003347 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 536230003348 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 536230003349 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 536230003350 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 536230003351 Phage capsid family; Region: Phage_capsid; pfam05065 536230003352 hypothetical protein; Region: PHA02030 536230003353 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 536230003354 Phage integrase family; Region: Phage_integrase; pfam00589 536230003355 DNA binding site 536230003356 Int/Topo IB signature motif; other site 536230003357 active site 536230003358 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 536230003359 DNA binding site 536230003360 Int/Topo IB signature motif; other site 536230003361 active site 536230003362 Uncharacterized conserved protein [Function unknown]; Region: COG4104 536230003363 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 536230003364 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230003365 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230003366 Leucine carboxyl methyltransferase; Region: LCM; cl01306 536230003367 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 536230003368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230003369 DNA binding site 536230003370 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 536230003371 pyridoxal 5'-phosphate binding site; other site 536230003372 homodimer interface; other site 536230003373 catalytic residue; other site 536230003374 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 536230003375 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 536230003376 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 536230003377 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 536230003378 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 536230003379 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 536230003380 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 536230003381 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 536230003382 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 536230003383 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 536230003384 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 536230003385 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 536230003386 glycogen branching enzyme; Provisional; Region: PRK05402 536230003387 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 536230003388 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 536230003389 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 536230003390 trehalose synthase; Region: treS_nterm; TIGR02456 536230003391 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 536230003392 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 536230003393 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 536230003394 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 536230003395 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 536230003396 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230003397 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 536230003398 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 536230003399 Interdomain contacts; other site 536230003400 Cytokine receptor motif; other site 536230003401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230003402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003403 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 536230003404 dimerization interface; other site 536230003405 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230003406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230003407 active site 536230003408 phosphorylation site 536230003409 intermolecular recognition site; other site 536230003410 dimerization interface; other site 536230003411 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230003412 DNA binding site 536230003413 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 536230003414 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 536230003415 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230003416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230003417 active site 536230003418 phosphorylation site 536230003419 intermolecular recognition site; other site 536230003420 dimerization interface; other site 536230003421 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230003422 DNA binding site 536230003423 YadA-like C-terminal region; Region: YadA; pfam03895 536230003424 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230003425 ligand binding site; other site 536230003426 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 536230003427 binding surface 536230003428 TPR motif; other site 536230003429 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 536230003430 H-NS histone family; Region: Histone_HNS; pfam00816 536230003431 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 536230003432 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 536230003433 Cu(I) binding site; other site 536230003434 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly...; Region: RICIN; cd00161 536230003435 putative sugar binding sites; other site 536230003436 Q-X-W motif; other site 536230003437 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly...; Region: RICIN; cl00126 536230003438 Galactose oxidase C-terminus domain. Galactose oxidase is an extracellular monomeric enzyme which catalyses the stereospecific oxidation of a broad range of primary alcohol substrates and possesses a unique mononuclear copper site essential for...; Region: Galactose_oxidase_C_term; cd02851 536230003439 Chlorophyllase; Region: Chlorophyllase; cl06316 536230003440 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536230003441 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 536230003442 Uncharacterized conserved protein [Function unknown]; Region: COG4104 536230003443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 536230003444 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 536230003445 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 536230003446 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 536230003447 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 536230003448 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 536230003449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 536230003450 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 536230003451 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 536230003452 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 536230003453 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 536230003454 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 536230003455 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 536230003456 Transposase, Mutator family; Region: Transposase_mut; pfam00872 536230003457 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 536230003458 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 536230003459 H-NS histone family; Region: Histone_HNS; pfam00816 536230003460 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 536230003461 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 536230003462 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 536230003463 active site 536230003464 benzoate transport; Region: 2A0115; TIGR00895 536230003465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003466 putative substrate translocation pore; other site 536230003467 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536230003468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003469 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 536230003470 dimerization interface; other site 536230003471 substrate binding pocket; other site 536230003472 Spore Coat Protein U domain; Region: SCPU; cl02253 536230003473 Spore Coat Protein U domain; Region: SCPU; cl02253 536230003474 Spore Coat Protein U domain; Region: SCPU; cl02253 536230003475 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230003476 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536230003477 Spore Coat Protein U domain; Region: SCPU; cl02253 536230003478 Spore Coat Protein U domain; Region: SCPU; cl02253 536230003479 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans...; Region: HisKA; cd00082 536230003480 dimer interface; other site 536230003481 phosphorylation site 536230003482 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 536230003483 ATP binding site; other site 536230003484 Mg2+ binding site; other site 536230003485 G-X-G motif; other site 536230003486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230003487 active site 536230003488 phosphorylation site 536230003489 intermolecular recognition site; other site 536230003490 dimerization interface; other site 536230003491 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230003492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230003493 active site 536230003494 phosphorylation site 536230003495 intermolecular recognition site; other site 536230003496 dimerization interface; other site 536230003497 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230003498 DNA binding residues 536230003499 dimerization interface; other site 536230003500 NodT family; Region: outer_NodT; TIGR01845 536230003501 Outer membrane efflux protein; Region: OEP; pfam02321 536230003502 Outer membrane efflux protein; Region: OEP; pfam02321 536230003503 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230003504 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003505 putative substrate translocation pore; other site 536230003506 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 536230003507 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 536230003508 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 536230003509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003510 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 536230003511 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 536230003512 Phosphoesterase family; Region: Phosphoesterase; cl10627 536230003513 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 536230003514 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 536230003515 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 536230003516 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 536230003517 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 536230003518 X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+ for their activity. Members of this family are recognized by a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which forms a...; Region: Nudix_Hydrolase; cd02883 536230003519 nudix motif; other site 536230003520 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 536230003521 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230003522 HIGH motif; other site 536230003523 active site 536230003524 nucleotide binding site; other site 536230003525 catalytic core domain of non-descriminating glutamyl-tRNA and glutaminyl-tRNA synthetase; Region: Gln_GluRS_non_core; cd00807 536230003526 KMSKS motif; other site 536230003527 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 536230003528 CoA-transferase family III; Region: CoA_transf_3; cl00778 536230003529 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 536230003530 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 536230003531 motif 1; other site 536230003532 active site 536230003533 motif 2; other site 536230003534 motif 3; other site 536230003535 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 536230003536 DHHA1 domain; Region: DHHA1; pfam02272 536230003537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230003538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003539 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 536230003540 dimerization interface; other site 536230003541 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 536230003542 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 536230003543 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 536230003544 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 536230003545 protein binding site; other site 536230003546 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 536230003547 protein binding site; other site 536230003548 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 536230003549 nudix motif; other site 536230003550 Domain of unknown function (DUF74); Region: DUF74; cl00426 536230003551 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 536230003552 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 536230003553 putative active site; other site 536230003554 metal-binding site 536230003555 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 536230003556 active site 536230003557 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 536230003558 TM-ABC transporter signature motif; other site 536230003559 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 536230003560 TM-ABC transporter signature motif; other site 536230003561 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230003562 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 536230003563 Walker A/P-loop; other site 536230003564 ATP binding site; other site 536230003565 Q-loop/lid; other site 536230003566 ABC transporter signature motif; other site 536230003567 Walker B; other site 536230003568 D-loop; other site 536230003569 H-loop/switch region; other site 536230003570 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230003571 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 536230003572 Walker A/P-loop; other site 536230003573 ATP binding site; other site 536230003574 Q-loop/lid; other site 536230003575 ABC transporter signature motif; other site 536230003576 Walker B; other site 536230003577 D-loop; other site 536230003578 H-loop/switch region; other site 536230003579 KduI/IolB family; Region: KduI; cl01508 536230003580 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 536230003581 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 536230003582 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230003583 PYR/PP interface; other site 536230003584 dimer interface; other site 536230003585 TPP binding site; other site 536230003586 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230003587 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 536230003588 TPP-binding site; other site 536230003589 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 536230003590 substrate binding site; other site 536230003591 ATP binding site; other site 536230003592 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 536230003593 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230003594 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 536230003595 Walker A/P-loop; other site 536230003596 ATP binding site; other site 536230003597 Q-loop/lid; other site 536230003598 ABC transporter signature motif; other site 536230003599 Walker B; other site 536230003600 D-loop; other site 536230003601 H-loop/switch region; other site 536230003602 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 536230003603 TM-ABC transporter signature motif; other site 536230003604 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 536230003605 putative ligand binding site; other site 536230003606 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536230003607 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 536230003608 putative active site; other site 536230003609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003610 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 536230003611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003612 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 536230003613 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two...; Region: SirA_YedF_YeeD; cd00291 536230003614 CPxP motif; other site 536230003615 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230003616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230003617 active site 536230003618 phosphorylation site 536230003619 intermolecular recognition site; other site 536230003620 dimerization interface; other site 536230003621 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230003622 DNA binding site 536230003623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 536230003624 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 536230003625 putative peptidoglycan binding site; other site 536230003626 FecR protein; Region: FecR; pfam04773 536230003627 CHASE2 domain; Region: CHASE2; cl01732 536230003628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 536230003629 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 536230003630 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 536230003631 ATP binding site; other site 536230003632 Mg2+ binding site; other site 536230003633 G-X-G motif; other site 536230003634 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 536230003635 active site 536230003636 tetramer interface; other site 536230003637 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 536230003638 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230003639 HIGH motif; other site 536230003640 active site 536230003641 nucleotide binding site; other site 536230003642 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 536230003643 active site 536230003644 KMSKS motif; other site 536230003645 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 536230003646 tRNA binding surface; other site 536230003647 anticodon binding site; other site 536230003648 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 536230003649 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 536230003650 UvrD/REP helicase; Region: UvrD-helicase; cl14126 536230003651 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 536230003652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003653 putative substrate translocation pore; other site 536230003654 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230003655 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230003656 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 536230003657 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 536230003658 Fusaric acid resistance protein family; Region: FUSC; pfam04632 536230003659 NodT family; Region: outer_NodT; TIGR01845 536230003660 Outer membrane efflux protein; Region: OEP; pfam02321 536230003661 Outer membrane efflux protein; Region: OEP; pfam02321 536230003662 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 536230003663 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003664 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 536230003665 putative effector binding pocket; other site 536230003666 dimerization interface; other site 536230003667 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230003668 active site 536230003669 metal-binding site 536230003670 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230003671 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230003672 FAD binding domain; Region: FAD_binding_4; cl10516 536230003673 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 536230003674 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 536230003675 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 536230003676 Protein of unknown function (DUF962); Region: DUF962; cl01879 536230003677 FOG: CBS domain [General function prediction only]; Region: COG0517 536230003678 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 536230003679 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 536230003680 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536230003681 putative acyl-acceptor binding pocket; other site 536230003682 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 536230003683 Tetramer interface; other site 536230003684 active site 536230003685 FMN-binding site; other site 536230003686 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 536230003687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003688 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 536230003689 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 536230003690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003691 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 536230003692 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 536230003693 active site 536230003694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230003695 Transposase; Region: Transposase_12; pfam01610 536230003696 PAS fold; Region: PAS_4; pfam08448 536230003697 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 536230003698 putative active site; other site 536230003699 heme pocket; other site 536230003700 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230003701 DNA binding residues 536230003702 dimerization interface; other site 536230003703 Coenzyme A transferase; Region: CoA_trans; cl00773 536230003704 Coenzyme A transferase; Region: CoA_trans; cl00773 536230003705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003706 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 536230003707 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 536230003708 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 536230003709 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003710 transcriptional activator TtdR; Provisional; Region: PRK09801 536230003711 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 536230003712 putative effector binding pocket; other site 536230003713 dimerization interface; other site 536230003714 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230003715 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230003716 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230003717 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 536230003718 homotrimer interaction site; other site 536230003719 putative active site; other site 536230003720 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 536230003721 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536230003722 synthetase active site; other site 536230003723 NTP binding site; other site 536230003724 metal-binding site 536230003725 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named...; Region: TGS_RelA_SpoT; cd01668 536230003726 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 536230003727 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 536230003728 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase...; Region: TGS_ThrRS_N; cd01667 536230003729 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 536230003730 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 536230003731 active site 536230003732 dimer interface; other site 536230003733 motif 1; other site 536230003734 motif 2; other site 536230003735 motif 3; other site 536230003736 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 536230003737 anticodon binding site; other site 536230003738 translation initiation factor IF-3; Region: infC; TIGR00168 536230003739 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 536230003740 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 536230003741 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 536230003742 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 536230003743 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 536230003744 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 536230003745 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 536230003746 dimer interface; other site 536230003747 motif 1; other site 536230003748 active site 536230003749 motif 2; other site 536230003750 motif 3; other site 536230003751 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 536230003752 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 536230003753 putative tRNA-binding site; other site 536230003754 B3/4 domain; Region: B3_4; cl11458 536230003755 tRNA synthetase B5 domain; Region: B5; cl08394 536230003756 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 536230003757 dimer interface; other site 536230003758 motif 1; other site 536230003759 motif 3; other site 536230003760 motif 2; other site 536230003761 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 536230003762 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher...; Region: HU_IHF; cd00591 536230003763 IHF dimer interface; other site 536230003764 IHF - DNA interface; other site 536230003765 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536230003766 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 536230003767 DNA binding residues 536230003768 Domain of unknown function (DUF811); Region: DUF811; pfam05665 536230003769 Domain of unknown function (DUF811); Region: DUF811; pfam05665 536230003770 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 536230003771 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536230003772 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 536230003773 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 536230003774 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 536230003775 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 536230003776 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 536230003777 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 536230003778 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 536230003779 putative active site; other site 536230003780 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 536230003781 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 536230003782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003783 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 536230003784 putative dimerization interface; other site 536230003785 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 536230003786 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536230003787 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 536230003788 RNA binding surface; other site 536230003789 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 536230003790 probable active site; other site 536230003791 hypothetical protein; Reviewed; Region: PRK00092 536230003792 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 536230003793 Sm1 motif; other site 536230003794 predicted subunit interaction site; other site 536230003795 RNA binding pocket; other site 536230003796 Sm2 motif; other site 536230003797 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 536230003798 NusA N-terminal domain; Region: NusA_N; pfam08529 536230003799 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and...; Region: S1_NusA; cd04455 536230003800 RNA binding site; other site 536230003801 homodimer interface; other site 536230003802 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 536230003803 G-X-X-G motif; other site 536230003804 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 536230003805 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 536230003806 translation initiation factor IF-2; Validated; Region: infB; PRK05306 536230003807 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 536230003808 translation initiation factor IF-2; Region: IF-2; TIGR00487 536230003809 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 536230003810 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 536230003811 G1 box; other site 536230003812 putative GEF interaction site; other site 536230003813 GTP/Mg2+ binding site; other site 536230003814 Switch I region; other site 536230003815 G2 box; other site 536230003816 G3 box; other site 536230003817 Switch II region; other site 536230003818 G4 box; other site 536230003819 G5 box; other site 536230003820 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the...; Region: IF2_mtIF2_II; cd03702 536230003821 Translation-initiation factor 2; Region: IF-2; pfam11987 536230003822 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation...; Region: mtIF2_IVc; cd03692 536230003823 Ribosome-binding factor A; Region: RBFA; cl00542 536230003824 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 536230003825 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 536230003826 RNA binding site; other site 536230003827 active site 536230003828 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230003829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003830 putative substrate translocation pore; other site 536230003831 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003832 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 536230003833 NodT family; Region: outer_NodT; TIGR01845 536230003834 Outer membrane efflux protein; Region: OEP; pfam02321 536230003835 Outer membrane efflux protein; Region: OEP; pfam02321 536230003836 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230003837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230003838 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 536230003839 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 536230003840 G1 box; other site 536230003841 putative GEF interaction site; other site 536230003842 GTP/Mg2+ binding site; other site 536230003843 Switch I region; other site 536230003844 G2 box; other site 536230003845 G3 box; other site 536230003846 Switch II region; other site 536230003847 G4 box; other site 536230003848 G5 box; other site 536230003849 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 536230003850 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a...; Region: BipA_TypA_C; cd03710 536230003851 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 536230003852 TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 536230003853 TPP-binding site; other site 536230003854 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 536230003855 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 536230003856 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 536230003857 E3 interaction surface; other site 536230003858 lipoyl attachment site; other site 536230003859 e3 binding domain; Region: E3_binding; pfam02817 536230003860 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 536230003861 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 536230003862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003863 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 536230003864 Predicted ATPase [General function prediction only]; Region: COG1485 536230003865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230003866 Walker A/P-loop; other site 536230003867 ATP binding site; other site 536230003868 Q-loop/lid; other site 536230003869 Walker B; other site 536230003870 D-loop; other site 536230003871 H-loop/switch region; other site 536230003872 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 536230003873 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 536230003874 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 536230003875 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 536230003876 Surface antigen; Region: Bac_surface_Ag; cl03097 536230003877 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 536230003878 TadE-like protein; Region: TadE; pfam07811 536230003879 SAF domain; Region: SAF; cl00555 536230003880 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 536230003881 conserved cys residue; other site 536230003882 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 536230003883 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 536230003884 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly...; Region: CpaE_like; cd03111 536230003885 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 536230003886 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 536230003887 ATP binding site; other site 536230003888 Walker A motif; other site 536230003889 hexamer interface; other site 536230003890 Walker B motif; other site 536230003891 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230003892 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230003893 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 536230003894 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 536230003895 binding surface 536230003896 TPR motif; other site 536230003897 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 536230003898 Predicted membrane protein [Function unknown]; Region: COG4655 536230003899 Predicted membrane protein (DUF2134); Region: DUF2134; pfam09977 536230003900 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230003901 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230003902 Walker A motif; other site 536230003903 ATP binding site; other site 536230003904 Walker B motif; other site 536230003905 arginine finger; other site 536230003906 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 536230003907 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 536230003908 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 536230003909 Sm1 motif; other site 536230003910 D3 - B interaction site; other site 536230003911 D1 - D2 interaction site; other site 536230003912 Hfq - Hfq interaction site; other site 536230003913 RNA binding pocket; other site 536230003914 Sm2 motif; other site 536230003915 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 536230003916 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 536230003917 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230003918 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230003919 putative sialic acid transporter; Region: 2A0112; TIGR00891 536230003920 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230003921 putative substrate translocation pore; other site 536230003922 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536230003923 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230003924 Putative ParB-like nuclease; Region: ParBc_2; cl01772 536230003925 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 536230003926 Permease family; Region: Xan_ur_permease; cl00967 536230003927 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 536230003928 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 536230003929 Phosphoesterase family; Region: Phosphoesterase; cl10627 536230003930 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230003931 ribonuclease R; Region: RNase_R; TIGR02063 536230003932 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 536230003933 RNB domain; Region: RNB; pfam00773 536230003934 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230003935 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 536230003936 RNA binding site; other site 536230003937 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 536230003938 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 536230003939 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 536230003940 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 536230003941 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 536230003942 amidase catalytic site; other site 536230003943 Zn binding residues; other site 536230003944 substrate binding site; other site 536230003945 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536230003946 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 536230003947 tetramer (dimer of dimers) interface; other site 536230003948 active site 536230003949 dimer interface; other site 536230003950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230003951 DNA binding site 536230003952 FCD domain; Region: FCD; cl11656 536230003953 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536230003954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003955 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230003956 dimer interface; other site 536230003957 conserved gate region; other site 536230003958 putative PBP binding loops; other site 536230003959 ABC-ATPase subunit interface; other site 536230003960 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230003961 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230003962 substrate binding pocket; other site 536230003963 membrane-bound complex binding site; other site 536230003964 hinge residues; other site 536230003965 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_2_like; cd04738 536230003966 quinone interaction residues; other site 536230003967 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 536230003968 active site 536230003969 catalytic residues; other site 536230003970 FMN binding site; other site 536230003971 substrate binding site; other site 536230003972 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 536230003973 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 536230003974 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 536230003975 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 536230003976 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 536230003977 nudix motif; other site 536230003978 Domain of unknown function (DUF336); Region: DUF336; cl01249 536230003979 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 536230003980 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 536230003981 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230003982 substrate binding site; other site 536230003983 oxyanion hole (OAH) forming residues; other site 536230003984 trimer interface; other site 536230003985 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 536230003986 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 536230003987 active site 536230003988 dimer interface; other site 536230003989 non-prolyl cis peptide bond; other site 536230003990 insertion regions; other site 536230003991 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230003992 dimer interface; other site 536230003993 conserved gate region; other site 536230003994 putative PBP binding loops; other site 536230003995 ABC-ATPase subunit interface; other site 536230003996 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 536230003997 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 536230003998 Walker A/P-loop; other site 536230003999 ATP binding site; other site 536230004000 Q-loop/lid; other site 536230004001 ABC transporter signature motif; other site 536230004002 Walker B; other site 536230004003 D-loop; other site 536230004004 H-loop/switch region; other site 536230004005 TOBE domain; Region: TOBE_2; cl01440 536230004006 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 536230004007 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 536230004008 FMN binding site; other site 536230004009 active site 536230004010 catalytic residues; other site 536230004011 substrate binding site; other site 536230004012 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 536230004013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004014 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 536230004015 CoenzymeA binding site; other site 536230004016 subunit interaction site; other site 536230004017 PHB binding site; other site 536230004018 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 536230004019 active site 536230004020 catalytic tetrad; other site 536230004021 Predicted permease; Region: DUF318; cl00487 536230004022 ABC-2 type transporter; Region: ABC2_membrane; cl11417 536230004023 nodulation ABC transporter NodI; Provisional; Region: PRK13537 536230004024 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 536230004025 Walker A/P-loop; other site 536230004026 ATP binding site; other site 536230004027 Q-loop/lid; other site 536230004028 ABC transporter signature motif; other site 536230004029 Walker B; other site 536230004030 D-loop; other site 536230004031 H-loop/switch region; other site 536230004032 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 536230004033 Ligand Binding Site; other site 536230004034 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 536230004035 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004036 LexA repressor; Validated; Region: PRK00215 536230004037 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 536230004038 Catalytic site; other site 536230004039 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 536230004040 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230004041 dimer interface; other site 536230004042 conserved gate region; other site 536230004043 putative PBP binding loops; other site 536230004044 ABC-ATPase subunit interface; other site 536230004045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230004046 dimer interface; other site 536230004047 conserved gate region; other site 536230004048 putative PBP binding loops; other site 536230004049 ABC-ATPase subunit interface; other site 536230004050 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 536230004051 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute...; Region: ABC_CysA_sulfate_importer; cd03296 536230004052 Walker A/P-loop; other site 536230004053 ATP binding site; other site 536230004054 Q-loop/lid; other site 536230004055 ABC transporter signature motif; other site 536230004056 Walker B; other site 536230004057 D-loop; other site 536230004058 H-loop/switch region; other site 536230004059 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 536230004060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004061 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 536230004062 substrate binding site; other site 536230004063 dimerization interface; other site 536230004064 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 536230004065 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 536230004066 ligand binding site; other site 536230004067 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 536230004068 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 536230004069 Walker A/P-loop; other site 536230004070 ATP binding site; other site 536230004071 Q-loop/lid; other site 536230004072 ABC transporter signature motif; other site 536230004073 Walker B; other site 536230004074 D-loop; other site 536230004075 H-loop/switch region; other site 536230004076 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_II; cd03215 536230004077 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 536230004078 TM-ABC transporter signature motif; other site 536230004079 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230004080 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230004081 DNA binding site 536230004082 domain linker motif; other site 536230004083 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536230004084 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 536230004085 substrate binding site; other site 536230004086 dimer interface; other site 536230004087 ATP binding site; other site 536230004088 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 536230004089 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230004090 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 536230004091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004092 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 536230004093 Protein of unknown function (DUF444); Region: DUF444; pfam04285 536230004094 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 536230004095 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; cl01044 536230004096 SpoVR like protein; Region: SpoVR; pfam04293 536230004097 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230004098 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 536230004099 putative substrate translocation pore; other site 536230004100 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 536230004101 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 536230004102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230004103 Transposase; Region: Transposase_12; pfam01610 536230004104 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230004105 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 536230004106 Walker A/P-loop; other site 536230004107 ATP binding site; other site 536230004108 Q-loop/lid; other site 536230004109 ABC transporter signature motif; other site 536230004110 Walker B; other site 536230004111 D-loop; other site 536230004112 H-loop/switch region; other site 536230004113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230004114 SAF domain; Region: SAF; cl00555 536230004115 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 536230004116 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 536230004117 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 536230004118 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 536230004119 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 536230004120 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230004121 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 536230004122 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 536230004123 ATP binding site; other site 536230004124 Walker A motif; other site 536230004125 hexamer interface; other site 536230004126 Walker B motif; other site 536230004127 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230004128 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230004129 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 536230004130 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 536230004131 binding surface 536230004132 TPR motif; other site 536230004133 TadE-like protein; Region: TadE; pfam07811 536230004134 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230004135 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230004136 substrate binding pocket; other site 536230004137 membrane-bound complex binding site; other site 536230004138 hinge residues; other site 536230004139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230004140 dimer interface; other site 536230004141 conserved gate region; other site 536230004142 putative PBP binding loops; other site 536230004143 ABC-ATPase subunit interface; other site 536230004144 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230004145 dimer interface; other site 536230004146 conserved gate region; other site 536230004147 putative PBP binding loops; other site 536230004148 ABC-ATPase subunit interface; other site 536230004149 Peptidase family M23; Region: Peptidase_M23; pfam01551 536230004150 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 536230004151 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230004152 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 536230004153 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 536230004154 multidrug efflux protein; Reviewed; Region: PRK09577 536230004155 Protein export membrane protein; Region: SecD_SecF; cl14618 536230004156 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 536230004157 Outer membrane efflux protein; Region: OEP; pfam02321 536230004158 Outer membrane efflux protein; Region: OEP; pfam02321 536230004159 Fimbrial protein; Region: Fimbrial; cl01416 536230004160 Fimbrial Usher protein; Region: Usher; pfam00577 536230004161 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230004162 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536230004163 Fimbrial protein; Region: Fimbrial; cl01416 536230004164 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536230004165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004166 Walker A/P-loop; other site 536230004167 ATP binding site; other site 536230004168 Q-loop/lid; other site 536230004169 ABC transporter signature motif; other site 536230004170 Walker B; other site 536230004171 D-loop; other site 536230004172 H-loop/switch region; other site 536230004173 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 536230004174 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 536230004175 Ligand Binding Site; other site 536230004176 Molecular Tunnel; other site 536230004177 Cupin domain; Region: Cupin_2; cl09118 536230004178 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230004179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230004180 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 536230004181 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 536230004182 putative ligand binding site; other site 536230004183 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 536230004184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004185 Walker A/P-loop; other site 536230004186 ATP binding site; other site 536230004187 Q-loop/lid; other site 536230004188 ABC transporter signature motif; other site 536230004189 Walker B; other site 536230004190 D-loop; other site 536230004191 H-loop/switch region; other site 536230004192 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 536230004193 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 536230004194 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 536230004195 TM-ABC transporter signature motif; other site 536230004196 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536230004197 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 536230004198 NAD(P) binding site; other site 536230004199 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 536230004200 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 536230004201 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 536230004202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004203 short chain dehydrogenase; Provisional; Region: PRK06841 536230004204 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 536230004205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230004206 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 536230004207 MbtH-like protein; Region: MbtH; cl01279 536230004208 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 536230004209 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536230004210 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536230004211 Walker A/P-loop; other site 536230004212 ATP binding site; other site 536230004213 Q-loop/lid; other site 536230004214 ABC transporter signature motif; other site 536230004215 Walker B; other site 536230004216 D-loop; other site 536230004217 H-loop/switch region; other site 536230004218 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 536230004219 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 536230004220 ABC-ATPase subunit interface; other site 536230004221 dimer interface; other site 536230004222 putative PBP binding regions; other site 536230004223 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 536230004224 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 536230004225 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 536230004226 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 536230004227 siderophore binding site; other site 536230004228 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 536230004229 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 536230004230 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 536230004231 Walker A/P-loop; other site 536230004232 ATP binding site; other site 536230004233 Q-loop/lid; other site 536230004234 ABC transporter signature motif; other site 536230004235 Walker B; other site 536230004236 D-loop; other site 536230004237 H-loop/switch region; other site 536230004238 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230004239 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004240 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004241 Condensation domain; Region: Condensation; cl09290 536230004242 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230004243 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004244 acyl-CoA synthetase; Validated; Region: PRK06164 536230004245 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004246 Condensation domain; Region: Condensation; cl09290 536230004247 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536230004248 Condensation domain; Region: Condensation; cl09290 536230004249 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 536230004250 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230004251 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004252 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004253 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004254 Condensation domain; Region: Condensation; cl09290 536230004255 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004256 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230004257 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004258 peptide synthase; Validated; Region: PRK05691 536230004259 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004260 Condensation domain; Region: Condensation; cl09290 536230004261 peptide synthase; Provisional; Region: PRK12467 536230004262 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 536230004263 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 536230004264 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 536230004265 N-terminal plug; other site 536230004266 ligand-binding site; other site 536230004267 Formyl transferase; Region: Formyl_trans_N; cl00395 536230004268 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 536230004269 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 536230004270 catalytic triad; other site 536230004271 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 536230004272 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a...; Region: CobA_CobO_BtuR; cd00561 536230004273 homodimer interface; other site 536230004274 Walker A motif; other site 536230004275 ATP binding site; other site 536230004276 hydroxycobalamin binding site; other site 536230004277 Walker B motif; other site 536230004278 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 536230004279 High-affinity nickel-transport protein; Region: NicO; cl00964 536230004280 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 536230004281 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230004282 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 536230004283 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 536230004284 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230004285 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 536230004286 Walker A motif; other site 536230004287 ATP binding site; other site 536230004288 Walker B motif; other site 536230004289 arginine finger; other site 536230004290 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 536230004291 metal ion-dependent adhesion site (MIDAS); other site 536230004292 Predicted esterase [General function prediction only]; Region: COG0400 536230004293 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230004294 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 536230004295 active site 536230004296 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 536230004297 chitin/cellulose binding site; other site 536230004298 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 536230004299 chitin/cellulose binding site; other site 536230004300 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 536230004301 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 536230004302 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 536230004303 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 536230004304 Precorrin-8X methylmutase; Region: CbiC; cl00913 536230004305 precorrin-3B synthase; Region: CobG; TIGR02435 536230004306 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230004307 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230004308 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 536230004309 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230004310 CbiD; Region: CbiD; cl00828 536230004311 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 536230004312 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 536230004313 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 536230004314 putative cyanate transporter; Provisional; Region: cynX; PRK09705 536230004315 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230004316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004317 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230004318 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 536230004319 dimerization interface; other site 536230004320 ligand binding site; other site 536230004321 potential frameshift: common BLAST hit: gi|124383788|ref|YP_001026254.1| MarR family transcriptional regulator 536230004322 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230004323 glutathione S-transferase; Provisional; Region: PRK13972 536230004324 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_N_Ure2p_like; cd03048 536230004325 C-terminal domain interface; other site 536230004326 GSH binding site (G-site); other site 536230004327 dimer interface; other site 536230004328 GST_C family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_C_Ure2p_like; cd03178 536230004329 dimer interface; other site 536230004330 N-terminal domain interface; other site 536230004331 putative substrate binding pocket (H-site); other site 536230004332 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 536230004333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004334 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 536230004335 putative effector binding pocket; other site 536230004336 putative dimerization interface; other site 536230004337 Domain of unknown function (DUF336); Region: DUF336; cl01249 536230004338 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 536230004339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004340 carbamate kinase; Reviewed; Region: PRK09411 536230004341 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 536230004342 putative substrate binding site; other site 536230004343 nucleotide binding site; other site 536230004344 nucleotide binding site; other site 536230004345 homodimer interface; other site 536230004346 ornithine carbamoyltransferase; Validated; Region: PRK02102 536230004347 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536230004348 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536230004349 Amidinotransferase; Region: Amidinotransf; cl12043 536230004350 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 536230004351 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230004352 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230004353 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 536230004354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004355 Walker A/P-loop; other site 536230004356 ATP binding site; other site 536230004357 Q-loop/lid; other site 536230004358 ABC transporter signature motif; other site 536230004359 Walker B; other site 536230004360 D-loop; other site 536230004361 H-loop/switch region; other site 536230004362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230004363 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 536230004364 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 536230004365 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 536230004366 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 536230004367 S-adenosylmethionine binding site; other site 536230004368 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230004369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230004370 putative substrate translocation pore; other site 536230004371 AMP-binding domain protein; Validated; Region: PRK07529 536230004372 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004373 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 536230004374 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230004375 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 536230004376 EamA-like transporter family; Region: EamA; cl01037 536230004377 Cupin domain; Region: Cupin_2; cl09118 536230004378 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230004379 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230004380 trimer interface; other site 536230004381 eyelet of channel; other site 536230004382 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004383 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230004384 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230004385 MbtH-like protein; Region: MbtH; cl01279 536230004386 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 536230004387 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 536230004388 pyridoxal 5'-phosphate binding site; other site 536230004389 homodimer interface; other site 536230004390 catalytic residue; other site 536230004391 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 536230004392 S-adenosylmethionine binding site; other site 536230004393 Formyl transferase; Region: Formyl_trans_N; cl00395 536230004394 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 536230004395 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 536230004396 ANP binding site; other site 536230004397 Substrate Binding Site II; other site 536230004398 Substrate Binding Site I; other site 536230004399 argininosuccinate lyase; Provisional; Region: PRK00855 536230004400 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230004401 active sites 536230004402 tetramer interface; other site 536230004403 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 536230004404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230004405 putative substrate translocation pore; other site 536230004406 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230004407 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 536230004408 pyridoxal 5'-phosphate binding site; other site 536230004409 catalytic residue; other site 536230004410 dimer interface; other site 536230004411 argininosuccinate lyase; Provisional; Region: PRK02186 536230004412 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230004413 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230004414 active sites 536230004415 tetramer interface; other site 536230004416 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 536230004417 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 536230004418 tetramer interface; other site 536230004419 pyridoxal 5'-phosphate binding site; other site 536230004420 catalytic residue; other site 536230004421 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536230004422 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230004423 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 536230004424 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004425 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004426 Condensation domain; Region: Condensation; cl09290 536230004427 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230004428 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004429 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004430 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004431 Condensation domain; Region: Condensation; cl09290 536230004432 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230004433 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004434 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004435 Condensation domain; Region: Condensation; cl09290 536230004436 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230004437 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004438 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004439 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004440 Condensation domain; Region: Condensation; cl09290 536230004441 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230004442 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004443 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004444 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004445 Condensation domain; Region: Condensation; cl09290 536230004446 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230004447 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004448 peptide synthase; Provisional; Region: PRK12467 536230004449 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230004450 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 536230004451 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 536230004452 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 536230004453 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-...; Region: Ntn_hydrolase; cl00467 536230004454 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and 7-...; Region: Ntn_PGA_like; cd03747 536230004455 active site 536230004456 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 536230004457 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 536230004458 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end...; Region: E_set; cl09101 536230004459 SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from...; Region: XynB_like; cd01833 536230004460 active site 536230004461 catalytic triad; other site 536230004462 oxyanion hole; other site 536230004463 H-NS histone family; Region: Histone_HNS; pfam00816 536230004464 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 536230004465 potential frameshift: common BLAST hit: gi|172064642|ref|YP_001812292.1| TPR repeat-containing protein 536230004466 YadA-like C-terminal region; Region: YadA; pfam03895 536230004467 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 536230004468 insertion element IS2 transposase InsD; Reviewed; Region: PRK09409 536230004469 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230004470 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 536230004471 catalytic residues; other site 536230004472 catalytic nucleophile; other site 536230004473 Presynaptic Site I dimer interface; other site 536230004474 Synaptic Antiparallel dimer interface; other site 536230004475 Synaptic Flat tetramer interface; other site 536230004476 Synaptic Site I dimer interface; other site 536230004477 DNA binding site 536230004478 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 536230004479 DNA-binding interface; DNA binding site 536230004480 potential frameshift: common BLAST hit: gi|116687240|ref|YP_840486.1| phage integrase family protein 536230004481 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 536230004482 DNA binding site 536230004483 Int/Topo IB signature motif; other site 536230004484 active site 536230004485 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230004486 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 536230004487 catalytic residues; other site 536230004488 catalytic nucleophile; other site 536230004489 Presynaptic Site I dimer interface; other site 536230004490 Synaptic Antiparallel dimer interface; other site 536230004491 Synaptic Flat tetramer interface; other site 536230004492 Synaptic Site I dimer interface; other site 536230004493 DNA binding site 536230004494 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 536230004495 DNA-binding interface; DNA binding site 536230004496 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536230004497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230004498 DNA binding site 536230004499 FCD domain; Region: FCD; cl11656 536230004500 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 536230004501 Integrase core domain; Region: rve; cl01316 536230004502 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 536230004503 Protein of unknown function (DUF692); Region: DUF692; cl01263 536230004504 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 536230004505 DoxX; Region: DoxX; cl00976 536230004506 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 536230004507 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 536230004508 RNA polymerase sigma factor; Provisional; Region: PRK12536 536230004509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230004510 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 536230004511 putative transposase OrfB; Reviewed; Region: PHA02517 536230004512 Integrase core domain; Region: rve; cl01316 536230004513 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 536230004514 active site residue 536230004515 allantoate amidohydrolase; Reviewed; Region: PRK12890 536230004516 allantoinase; Provisional; Region: PRK06189 536230004517 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 536230004518 active site 536230004519 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 536230004520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004521 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 536230004522 putative dimerization interface; other site 536230004523 Uncharacterized conserved protein [Function unknown]; Region: COG3535 536230004524 Protein of unknown function (DUF917); Region: DUF917; pfam06032 536230004525 urocanate hydratase; Provisional; Region: PRK05414 536230004526 urocanate hydratase; Region: hutU; TIGR01228 536230004527 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230004528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230004529 putative substrate translocation pore; other site 536230004530 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 536230004531 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 536230004532 active sites 536230004533 tetramer interface; other site 536230004534 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230004535 trimer interface; other site 536230004536 eyelet of channel; other site 536230004537 putative transposase OrfB; Reviewed; Region: PHA02517 536230004538 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 536230004539 Transposase DDE domain; Region: Transposase_11; pfam01609 536230004540 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230004541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230004542 active site 536230004543 phosphorylation site 536230004544 intermolecular recognition site; other site 536230004545 dimerization interface; other site 536230004546 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230004547 DNA binding site 536230004548 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation...; Region: APSK; cd02027 536230004549 ligand-binding site; other site 536230004550 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 536230004551 TPR motif; other site 536230004552 binding surface 536230004553 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230004554 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 536230004555 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 536230004556 binding surface 536230004557 TPR motif; other site 536230004558 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 536230004559 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 536230004560 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 536230004561 binding surface 536230004562 TPR motif; other site 536230004563 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 536230004564 binding surface 536230004565 TPR motif; other site 536230004566 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 536230004567 TPR motif; other site 536230004568 binding surface 536230004569 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 536230004570 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 536230004571 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 536230004572 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 536230004573 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 536230004574 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 536230004575 Walker A/P-loop; other site 536230004576 ATP binding site; other site 536230004577 Q-loop/lid; other site 536230004578 ABC transporter signature motif; other site 536230004579 Walker B; other site 536230004580 D-loop; other site 536230004581 H-loop/switch region; other site 536230004582 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 536230004583 Outer membrane efflux protein; Region: OEP; pfam02321 536230004584 Outer membrane efflux protein; Region: OEP; pfam02321 536230004585 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 536230004586 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230004587 ligand binding site; other site 536230004588 H-NS histone family; Region: Histone_HNS; pfam00816 536230004589 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230004590 trimer interface; other site 536230004591 eyelet of channel; other site 536230004592 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 536230004593 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 536230004594 tetramerization interface; other site 536230004595 NAD(P) binding site; other site 536230004596 catalytic residues; other site 536230004597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230004598 DNA binding site 536230004599 FCD domain; Region: FCD; cl11656 536230004600 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536230004601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004602 Walker A/P-loop; other site 536230004603 ATP binding site; other site 536230004604 Q-loop/lid; other site 536230004605 ABC transporter signature motif; other site 536230004606 Walker B; other site 536230004607 D-loop; other site 536230004608 H-loop/switch region; other site 536230004609 TOBE domain; Region: TOBE_2; cl01440 536230004610 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230004611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230004612 putative PBP binding loops; other site 536230004613 ABC-ATPase subunit interface; other site 536230004614 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 536230004615 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 536230004616 NIPSNAP; Region: NIPSNAP; pfam07978 536230004617 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 536230004618 NAD(P) binding site; other site 536230004619 catalytic residues; other site 536230004620 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 536230004621 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 536230004622 Flavin Reductases; Region: FlaRed; cl00801 536230004623 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 536230004624 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230004625 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 536230004626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230004627 DNA binding site 536230004628 FCD domain; Region: FCD; cl11656 536230004629 Transposase, Mutator family; Region: Transposase_mut; pfam00872 536230004630 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 536230004631 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 536230004632 active site flap/lid 536230004633 nucleophilic elbow; other site 536230004634 catalytic triad; other site 536230004635 transcriptional regulator FimZ; Provisional; Region: PRK09935 536230004636 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 536230004637 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 536230004638 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230004639 dimer interface; other site 536230004640 phosphorylation site 536230004641 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 536230004642 ATP binding site; other site 536230004643 Mg2+ binding site; other site 536230004644 G-X-G motif; other site 536230004645 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 536230004646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230004647 active site 536230004648 phosphorylation site 536230004649 intermolecular recognition site; other site 536230004650 dimerization interface; other site 536230004651 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230004652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230004653 active site 536230004654 phosphorylation site 536230004655 intermolecular recognition site; other site 536230004656 dimerization interface; other site 536230004657 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230004658 DNA binding residues 536230004659 dimerization interface; other site 536230004660 Haemagglutinin; Region: HIM; pfam05662 536230004661 YadA-like C-terminal region; Region: YadA; pfam03895 536230004662 Fimbrial protein; Region: Fimbrial; cl01416 536230004663 Fimbrial Usher protein; Region: Usher; pfam00577 536230004664 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536230004665 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230004666 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536230004667 Fimbrial protein; Region: Fimbrial; cl01416 536230004668 MEKHLA domain; Region: MEKHLA; pfam08670 536230004669 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230004670 potential frameshift: common BLAST hit: gi|76812055|ref|YP_333632.1| EutG protein 536230004671 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 536230004672 active site 536230004673 metal-binding site 536230004674 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 536230004675 NAD binding site; other site 536230004676 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 536230004677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004678 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 536230004679 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536230004680 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)...; Region: Rieske; cl00938 536230004681 iron-sulfur cluster; other site 536230004682 [2Fe-2S] cluster binding site; other site 536230004683 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 536230004684 dihydroxyacetone kinase; Provisional; Region: PRK14479 536230004685 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 536230004686 DAK2 domain; Region: Dak2; cl03685 536230004687 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 536230004688 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230004689 ABC-2 type transporter; Region: ABC2_membrane; cl11417 536230004690 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536230004691 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004692 Walker A/P-loop; other site 536230004693 ATP binding site; other site 536230004694 Q-loop/lid; other site 536230004695 ABC transporter signature motif; other site 536230004696 Walker B; other site 536230004697 D-loop; other site 536230004698 H-loop/switch region; other site 536230004699 ApbE family; Region: ApbE; cl00643 536230004700 nitrous-oxide reductase; Validated; Region: PRK02888 536230004701 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 536230004702 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 536230004703 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 536230004704 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536230004705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004706 Walker A/P-loop; other site 536230004707 ATP binding site; other site 536230004708 Q-loop/lid; other site 536230004709 ABC transporter signature motif; other site 536230004710 Walker B; other site 536230004711 D-loop; other site 536230004712 H-loop/switch region; other site 536230004713 ABC-2 type transporter; Region: ABC2_membrane; cl11417 536230004714 NosL; Region: NosL; cl01769 536230004715 Cytochrome c; Region: Cytochrom_C; cl11414 536230004716 FMN-binding domain; Region: FMN_bind; cl01081 536230004717 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 536230004718 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 536230004719 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 536230004720 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230004721 ribosomal protein L19 leader 536230004722 YCII-related domain; Region: YCII; cl00999 536230004723 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 536230004724 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 536230004725 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 536230004726 Predicted kinase [General function prediction only]; Region: COG0645 536230004727 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004728 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 536230004729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230004731 Transposase; Region: Transposase_12; pfam01610 536230004732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004733 thioester reductase domain; Region: Thioester-redct; TIGR01746 536230004734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004735 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230004736 Domain of Unknown Function (DUF1520); Region: DUF1520; pfam07480 536230004737 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230004738 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 536230004739 Predicted membrane protein (DUF2324); Region: DUF2324; cl01810 536230004740 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230004741 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230004742 DNA binding site 536230004743 domain linker motif; other site 536230004744 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 536230004745 putative ligand binding site; other site 536230004746 putative dimerization interface; other site 536230004747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004748 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230004749 d-galactonate transporter; Region: 2A0114; TIGR00893 536230004750 putative substrate translocation pore; other site 536230004751 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 536230004752 substrate binding site; other site 536230004753 ATP binding site; other site 536230004754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230004755 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 536230004756 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 536230004757 dimerization interface; other site 536230004758 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 536230004759 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 536230004760 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 536230004761 Cl- selectivity filter; other site 536230004762 Cl- binding residues; other site 536230004763 pore gating glutamate residue; other site 536230004764 dimer interface; other site 536230004765 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cd02205 536230004766 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230004767 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230004768 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 536230004769 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 536230004770 NodT family; Region: outer_NodT; TIGR01845 536230004771 Outer membrane efflux protein; Region: OEP; pfam02321 536230004772 Outer membrane efflux protein; Region: OEP; pfam02321 536230004773 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 536230004774 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 536230004775 DNA binding residues 536230004776 putative dimer interface; other site 536230004777 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230004778 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230004779 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 536230004780 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 536230004781 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 536230004782 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 536230004783 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230004784 Walker A motif; other site 536230004785 ATP binding site; other site 536230004786 Walker B motif; other site 536230004787 arginine finger; other site 536230004788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230004789 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 536230004790 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 536230004791 Sulfite exporter TauE/SafE; Region: TauE; cl00498 536230004792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230004793 dimer interface; other site 536230004794 conserved gate region; other site 536230004795 putative PBP binding loops; other site 536230004796 ABC-ATPase subunit interface; other site 536230004797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230004798 dimer interface; other site 536230004799 conserved gate region; other site 536230004800 putative PBP binding loops; other site 536230004801 ABC-ATPase subunit interface; other site 536230004802 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 536230004803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004804 Walker A/P-loop; other site 536230004805 ATP binding site; other site 536230004806 Q-loop/lid; other site 536230004807 ABC transporter signature motif; other site 536230004808 Walker B; other site 536230004809 D-loop; other site 536230004810 H-loop/switch region; other site 536230004811 TOBE domain; Region: TOBE_2; cl01440 536230004812 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 536230004813 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 536230004814 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 536230004815 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 536230004816 Surface antigen; Region: Surface_Ag_2; cl01155 536230004817 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230004818 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 536230004819 FMN binding site; other site 536230004820 substrate binding site; other site 536230004821 putative catalytic residue; other site 536230004822 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 536230004823 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 536230004824 NAD binding site; other site 536230004825 catalytic residues; other site 536230004826 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536230004827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004828 Walker A/P-loop; other site 536230004829 ATP binding site; other site 536230004830 Q-loop/lid; other site 536230004831 ABC transporter signature motif; other site 536230004832 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230004833 Walker B; other site 536230004834 D-loop; other site 536230004835 H-loop/switch region; other site 536230004836 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230004837 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 536230004838 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 536230004839 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 536230004840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230004841 Walker A/P-loop; other site 536230004842 ATP binding site; other site 536230004843 Q-loop/lid; other site 536230004844 ABC transporter signature motif; other site 536230004845 Walker B; other site 536230004846 D-loop; other site 536230004847 H-loop/switch region; other site 536230004848 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 536230004849 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 536230004850 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 536230004851 motif II; other site 536230004852 cystathionine beta-lyase; Provisional; Region: PRK07050 536230004853 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 536230004854 pyridoxal 5'-phosphate binding pocket; other site 536230004855 catalytic residue; other site 536230004856 beta-ketothiolase; Provisional; Region: PRK09051 536230004857 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 536230004858 dimer interface; other site 536230004859 active site 536230004860 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 536230004861 substrate binding site; other site 536230004862 ATP binding site; other site 536230004863 MiaB-like tRNA modifying enzyme YliG, TIGR01125; Region: TIGR01125 536230004864 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536230004865 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; cl14056 536230004866 TRAM domain; Region: TRAM; cl01282 536230004867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 536230004868 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 536230004869 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 536230004870 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 536230004871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004872 acetyl-CoA acetyltransferase; Provisional; Region: PRK05790 536230004873 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 536230004874 dimer interface; other site 536230004875 active site 536230004876 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 536230004877 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 536230004878 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230004879 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 536230004880 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 536230004881 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 536230004882 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 536230004883 RNA binding surface; other site 536230004884 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 536230004885 active site 536230004886 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 536230004887 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 536230004888 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; cl12029 536230004889 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 536230004890 Protein of unknown function (DUF465); Region: DUF465; cl01070 536230004891 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 536230004892 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 536230004893 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 536230004894 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 536230004895 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin...; Region: S1_Tex; cd05685 536230004896 RNA binding site; other site 536230004897 K+ potassium transporter; Region: K_trans; cl01227 536230004898 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230004899 adenylosuccinate synthetase; Provisional; Region: PRK01117 536230004900 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the r-...; Region: AdSS; cd03108 536230004901 GDP-binding site; other site 536230004902 ACT binding site; other site 536230004903 IMP binding site; other site 536230004904 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 536230004905 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 536230004906 dimer interface; other site 536230004907 motif 1; other site 536230004908 active site 536230004909 motif 2; other site 536230004910 motif 3; other site 536230004911 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 536230004912 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 536230004913 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 536230004914 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 536230004915 HflK protein; Region: hflK; TIGR01933 536230004916 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 536230004917 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 536230004918 G1 box; other site 536230004919 GTP/Mg2+ binding site; other site 536230004920 Switch I region; other site 536230004921 G2 box; other site 536230004922 G3 box; other site 536230004923 Switch II region; other site 536230004924 G4 box; other site 536230004925 G5 box; other site 536230004926 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 536230004927 Sm1 motif; other site 536230004928 intra - hexamer interaction site; other site 536230004929 inter - hexamer interaction site; other site 536230004930 nucleotide binding pocket; other site 536230004931 Sm2 motif; other site 536230004932 GTP-binding protein EngA; Reviewed; Region: engA; PRK00093 536230004933 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 536230004934 G1 box; other site 536230004935 GTP/Mg2+ binding site; other site 536230004936 Switch I region; other site 536230004937 G2 box; other site 536230004938 Switch II region; other site 536230004939 G3 box; other site 536230004940 G4 box; other site 536230004941 G5 box; other site 536230004942 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 536230004943 G1 box; other site 536230004944 GTP/Mg2+ binding site; other site 536230004945 Switch I region; other site 536230004946 G2 box; other site 536230004947 G3 box; other site 536230004948 Switch II region; other site 536230004949 G4 box; other site 536230004950 G5 box; other site 536230004951 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 536230004952 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 536230004953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 536230004954 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 536230004955 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 536230004956 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 536230004957 dimer interface; other site 536230004958 motif 1; other site 536230004959 active site 536230004960 motif 2; other site 536230004961 motif 3; other site 536230004962 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 536230004963 anticodon binding site; other site 536230004964 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 536230004965 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 536230004966 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 536230004967 non-specific DNA binding site; other site 536230004968 salt bridge; other site 536230004969 sequence-specific DNA binding site; other site 536230004970 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 536230004971 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 536230004972 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 536230004973 FeS/SAM binding site; other site 536230004974 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 536230004975 active site 536230004976 multimer interface; other site 536230004977 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 536230004978 23S rRNA 5-methyluridine methyltransferase; Reviewed; Region: rumA; PRK13168 536230004979 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230004980 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 536230004981 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 536230004982 active site 536230004983 catalytic site; other site 536230004984 substrate binding site; other site 536230004985 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: Exon_PolB; pfam10108 536230004986 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 536230004987 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 536230004988 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230004989 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 536230004990 DNA binding residues 536230004991 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 536230004992 putative peptidoglycan binding site; other site 536230004993 Peptidase family M23; Region: Peptidase_M23; pfam01551 536230004994 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230004995 Survival protein SurE; Region: SurE; cl00448 536230004996 CoA-transferase family III; Region: CoA_transf_3; cl00778 536230004997 recombination protein RecR; Reviewed; Region: recR; PRK00076 536230004998 RecR protein; Region: RecR; pfam02132 536230004999 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 536230005000 putative active site; other site 536230005001 putative metal-binding site; other site 536230005002 tetramer interface; other site 536230005003 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 536230005004 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 536230005005 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230005006 Walker A motif; other site 536230005007 ATP binding site; other site 536230005008 Walker B motif; other site 536230005009 arginine finger; other site 536230005010 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 536230005011 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 536230005012 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 536230005013 catalytic residues; other site 536230005014 transcription termination factor Rho; Provisional; Region: rho; PRK09376 536230005015 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 536230005016 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent...; Region: Rho_CSD; cd04459 536230005017 RNA binding site; other site 536230005018 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 536230005019 multimer interface; other site 536230005020 Walker A motif; other site 536230005021 ATP binding site; other site 536230005022 Walker B motif; other site 536230005023 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 536230005024 DNA binding residues 536230005025 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536230005026 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230005027 putative substrate translocation pore; other site 536230005028 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230005029 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 536230005030 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 536230005031 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 536230005032 putative efflux protein, MATE family; Region: matE; TIGR00797 536230005033 MatE; Region: MatE; pfam01554 536230005034 MatE; Region: MatE; pfam01554 536230005035 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 536230005036 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536230005037 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 536230005038 DNA binding residues 536230005039 putative dimer interface; other site 536230005040 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 536230005041 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 536230005042 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 536230005043 Clp amino terminal domain; Region: Clp_N; pfam02861 536230005044 Clp amino terminal domain; Region: Clp_N; pfam02861 536230005045 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230005046 Walker A motif; other site 536230005047 ATP binding site; other site 536230005048 Walker B motif; other site 536230005049 arginine finger; other site 536230005050 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230005051 Walker A motif; other site 536230005052 ATP binding site; other site 536230005053 Walker B motif; other site 536230005054 arginine finger; other site 536230005055 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536230005056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230005057 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 536230005058 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...; Region: Trunc_globin; cd00454 536230005059 apolar tunnel; other site 536230005060 heme binding site; other site 536230005061 dimerization interface; other site 536230005062 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 536230005063 MoaE homodimer interface; other site 536230005064 MoaD interaction; other site 536230005065 active site residues 536230005066 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 536230005067 MoaE interaction surface; other site 536230005068 MoeB interaction surface; other site 536230005069 thiocarboxylated glycine; other site 536230005070 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 536230005071 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 536230005072 dimer interface; other site 536230005073 putative functional site; other site 536230005074 putative MPT binding site; other site 536230005075 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 536230005076 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 536230005077 pyridoxal 5'-phosphate binding site; other site 536230005078 catalytic residue; other site 536230005079 homoserine dehydrogenase; Provisional; Region: PRK06349 536230005080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005081 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 536230005082 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 536230005083 alanine aminotransferase; Provisional; Region: PTZ00377 536230005084 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 536230005085 pyridoxal 5'-phosphate binding site; other site 536230005086 homodimer interface; other site 536230005087 catalytic residue; other site 536230005088 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 536230005089 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 536230005090 hypothetical protein; Provisional; Region: PRK02971 536230005091 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536230005092 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 536230005093 inhibitor-cofactor binding pocket; inhibition site 536230005094 pyridoxal 5'-phosphate binding site; other site 536230005095 catalytic residue; other site 536230005096 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 536230005097 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 536230005098 Ligand binding site; other site 536230005099 Putative Catalytic site; other site 536230005100 DXD motif; other site 536230005101 putative formyltransferase; Provisional; Region: PRK06988 536230005102 Formyl transferase; Region: Formyl_trans_N; cl00395 536230005103 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 536230005104 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 536230005105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005106 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 536230005107 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 536230005108 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 536230005109 catalytic triad; other site 536230005110 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 536230005111 PIN domain; Region: PIN; cl09128 536230005112 PhoH-like protein; Region: PhoH; cl12134 536230005113 NlpC/P60 family; Region: NLPC_P60; cl11438 536230005114 Phosphate transporter family; Region: PHO4; cl00396 536230005115 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 536230005116 replicative DNA helicase; Provisional; Region: PRK07004 536230005117 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 536230005118 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 536230005119 Walker A motif; other site 536230005120 ATP binding site; other site 536230005121 Walker B motif; other site 536230005122 DNA binding loops 536230005123 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 536230005124 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 536230005125 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 536230005126 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 536230005127 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 536230005128 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 536230005129 RNA polymerase sigma factor; Provisional; Region: PRK12533 536230005130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230005131 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 536230005132 DNA binding residues 536230005133 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230005134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536230005135 active site 536230005136 metal-binding site 536230005137 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 536230005138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230005139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230005140 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 536230005141 putative effector binding pocket; other site 536230005142 dimerization interface; other site 536230005143 glyoxylate carboligase; Provisional; Region: PRK11269 536230005144 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230005145 PYR/PP interface; other site 536230005146 dimer interface; other site 536230005147 TPP binding site; other site 536230005148 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230005149 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 536230005150 TPP-binding site; other site 536230005151 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 536230005152 2-hydroxy-3-oxopropionate reductase; Region: tartro_sem_red; TIGR01505 536230005153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005154 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 536230005155 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 536230005156 putative peptidoglycan binding site; other site 536230005157 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 536230005158 active site/substrate binding site 536230005159 tetramer interface; other site 536230005160 psiF repeat; Region: PsiF_repeat; pfam07769 536230005161 psiF repeat; Region: PsiF_repeat; pfam07769 536230005162 Domain of unknown function DUF221; Region: DUF221; pfam02714 536230005163 Family of unknown function (DUF500); Region: DUF500; cl01109 536230005164 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a...; Region: GT1_AviGT4_like; cd03802 536230005165 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230005166 putative ADP-binding pocket; other site 536230005167 Predicted ATPase [General function prediction only]; Region: COG4637 536230005168 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230005169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230005170 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230005171 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 536230005172 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 536230005173 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536230005174 active site 536230005175 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536230005176 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230005177 DNA polymerase III subunit delta'; Validated; Region: PRK06964 536230005178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230005179 thymidylate kinase; Validated; Region: tmk; PRK00698 536230005180 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 536230005181 TMP-binding site; other site 536230005182 ATP-binding site; other site 536230005183 YceG-like family; Region: YceG; pfam02618 536230005184 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 536230005185 dimerization interface; other site 536230005186 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 536230005187 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 536230005188 Protein of unknown function (DUF833); Region: DUF833; cl01315 536230005189 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230005190 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230005191 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536230005192 substrate binding pocket; other site 536230005193 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 536230005194 Prostaglandin dehydrogenases; Region: PGDH; cd05288 536230005195 NAD(P) binding site; other site 536230005196 substrate binding site; other site 536230005197 dimer interface; other site 536230005198 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 536230005199 CoenzymeA binding site; other site 536230005200 subunit interaction site; other site 536230005201 PHB binding site; other site 536230005202 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 536230005203 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 536230005204 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 536230005205 dimer interface; other site 536230005206 active site 536230005207 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 536230005208 catalytic triad; other site 536230005209 metal-binding site 536230005210 conserved cis-peptide bond; other site 536230005211 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230005212 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 536230005213 substrate binding site; other site 536230005214 oxyanion hole (OAH) forming residues; other site 536230005215 trimer interface; other site 536230005216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005217 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230005218 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230005219 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230005220 putative acyl-CoA synthetase; Provisional; Region: PRK06018 536230005221 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; cl00428 536230005222 SelR domain; Region: SelR; cl00369 536230005223 Intracellular septation protein A; Region: IspA; cl01098 536230005224 BolA-like protein; Region: BolA; cl00386 536230005225 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 536230005226 PPIC-type PPIASE domain; Region: Rotamase; cl08278 536230005227 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230005228 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 536230005229 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal...; Region: PurM-like; cl10019 536230005230 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 536230005231 dimerization interface; other site 536230005232 ATP binding site; other site 536230005233 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 536230005234 dimerization interface; other site 536230005235 ATP binding site; other site 536230005236 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 536230005237 putative active site; other site 536230005238 catalytic triad; other site 536230005239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005240 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 536230005241 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 536230005242 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 536230005243 putative substrate binding site; other site 536230005244 putative ATP binding site; other site 536230005245 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 536230005246 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 536230005247 active site 536230005248 dimer interface; other site 536230005249 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 536230005250 dimer interface; other site 536230005251 active site 536230005252 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 536230005253 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 536230005254 Walker A/P-loop; other site 536230005255 ATP binding site; other site 536230005256 Q-loop/lid; other site 536230005257 ABC transporter signature motif; other site 536230005258 Walker B; other site 536230005259 D-loop; other site 536230005260 H-loop/switch region; other site 536230005261 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 536230005262 active site 536230005263 catalytic triad; other site 536230005264 oxyanion hole; other site 536230005265 switch loop; other site 536230005266 peptidyl-prolyl cis-trans isomerase (rotamase D); Provisional; Region: PRK10788 536230005267 PPIC-type PPIASE domain; Region: Rotamase; cl08278 536230005268 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 536230005269 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 536230005270 30S subunit binding site; other site 536230005271 Found in ATP-dependent protease La (LON); Region: LON; cl01056 536230005272 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 536230005273 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230005274 Walker A motif; other site 536230005275 ATP binding site; other site 536230005276 Walker B motif; other site 536230005277 arginine finger; other site 536230005278 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536230005279 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 536230005280 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 536230005281 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230005282 Walker A motif; other site 536230005283 ATP binding site; other site 536230005284 Walker B motif; other site 536230005285 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536230005286 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 536230005287 oligomer interface; other site 536230005288 active site residues 536230005289 trigger factor; Provisional; Region: tig; PRK01490 536230005290 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 536230005291 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 536230005292 Glycerate kinase family; Region: Gly_kinase; cl00841 536230005293 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230005294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230005295 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 536230005296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005297 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536230005298 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230005299 dimerization interface; other site 536230005300 DNA binding residues 536230005301 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230005302 trimer interface; other site 536230005303 eyelet of channel; other site 536230005304 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 536230005305 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 536230005306 active site 536230005307 signature motif; other site 536230005308 Avidin family; Region: Avidin; pfam01382 536230005309 Uncharacterized conserved protein [Function unknown]; Region: COG4104 536230005310 potential frameshift: common BLAST hit: gi|83718143|ref|YP_439265.1| DNA adenine methylase 536230005311 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 536230005312 active site lid residues 536230005313 substrate binding pocket; other site 536230005314 catalytic residues; other site 536230005315 substrate-Mg2+ binding site; other site 536230005316 aspartate-rich region 1; other site 536230005317 aspartate-rich region 2; other site 536230005318 Protein of unknown function (DUF1501); Region: DUF1501; cl01699 536230005319 Protein of unknown function (DUF1800); Region: DUF1800; cl02181 536230005320 osmolarity response regulator; Provisional; Region: ompR; PRK09468 536230005321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230005322 active site 536230005323 phosphorylation site 536230005324 intermolecular recognition site; other site 536230005325 dimerization interface; other site 536230005326 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230005327 DNA binding site 536230005328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230005329 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 536230005330 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230005331 dimer interface; other site 536230005332 phosphorylation site 536230005333 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 536230005334 ATP binding site; other site 536230005335 Mg2+ binding site; other site 536230005336 G-X-G motif; other site 536230005337 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 536230005338 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...; Region: PRX_Typ2cys; cd03015 536230005339 dimer interface; other site 536230005340 decamer (pentamer of dimers) interface; other site 536230005341 catalytic triad; other site 536230005342 peroxidatic and resolving cysteines; other site 536230005343 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 536230005344 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 536230005345 homotrimer interaction site; other site 536230005346 zinc binding site; other site 536230005347 CDP-binding sites; other site 536230005348 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 536230005349 substrate binding site; other site 536230005350 dimer interface; other site 536230005351 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 536230005352 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 536230005353 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 536230005354 ATP binding site; other site 536230005355 putative Mg++ binding site; other site 536230005356 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 536230005357 nucleotide binding region; other site 536230005358 ATP-binding site; other site 536230005359 TRCF domain; Region: TRCF; pfam03461 536230005360 Peptidase dimerization domain; Region: M20_dimer; cl09126 536230005361 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 536230005362 serine racemase; Region: PLN02970 536230005363 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 536230005364 tetramer interface; other site 536230005365 pyridoxal 5'-phosphate binding site; other site 536230005366 catalytic residue; other site 536230005367 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 536230005368 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 536230005369 Transglycosylase; Region: Transgly; cl07896 536230005370 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 536230005371 PspA/IM30 family; Region: PspA_IM30; pfam04012 536230005372 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 536230005373 TPR motif; other site 536230005374 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 536230005375 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 536230005376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005377 Protein of unknown function (DUF1458); Region: DUF1458; cl01328 536230005378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230005379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230005380 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 536230005381 putative substrate binding pocket; other site 536230005382 putative dimerization interface; other site 536230005383 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 536230005384 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 536230005385 active site 536230005386 putative substrate binding pocket; other site 536230005387 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU)...; Region: TLP_HIUase; cd05822 536230005388 active site 536230005389 homotetramer interface; other site 536230005390 Predicted membrane protein [Function unknown]; Region: COG3748 536230005391 Protein of unknown function (DUF989); Region: DUF989; pfam06181 536230005392 Cytochrome c; Region: Cytochrom_C; cl11414 536230005393 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 536230005394 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 536230005395 allantoicase; Provisional; Region: PRK13257 536230005396 Allantoicase repeat; Region: Allantoicase; pfam03561 536230005397 Allantoicase repeat; Region: Allantoicase; pfam03561 536230005398 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 536230005399 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 536230005400 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 536230005401 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 536230005402 Sodium:solute symporter family; Region: SSF; cl00456 536230005403 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536230005404 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230005405 DNA binding site 536230005406 FCD domain; Region: FCD; cl11656 536230005407 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 536230005408 dimer interface; other site 536230005409 catalytic triad; other site 536230005410 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 536230005411 nucleoside/Zn binding site; other site 536230005412 dimer interface; other site 536230005413 catalytic motif; other site 536230005414 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 536230005415 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 536230005416 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 536230005417 active site 536230005418 metal-binding site 536230005419 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230005420 Walker A/P-loop; other site 536230005421 ATP binding site; other site 536230005422 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 536230005423 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 536230005424 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230005425 ABC transporter signature motif; other site 536230005426 Walker B; other site 536230005427 D-loop; other site 536230005428 H-loop/switch region; other site 536230005429 Domain of unknown function (DUF1814); Region: DUF1814; cl00973 536230005430 GMP synthase; Reviewed; Region: guaA; PRK00074 536230005431 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 536230005432 AMP/PPi binding site; other site 536230005433 candidate oxyanion hole; other site 536230005434 catalytic triad; other site 536230005435 potential glutamine specificity residues; other site 536230005436 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 536230005437 ATP Binding subdomain; other site 536230005438 Ligand Binding sites; other site 536230005439 Dimerization subdomain; other site 536230005440 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 536230005441 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 536230005442 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 536230005443 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 536230005444 active site 536230005445 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 536230005446 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 536230005447 Uncharacterized protein family (UPF0125); Region: UPF0125; cl01096 536230005448 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 536230005449 SmpB protein; Region: SmpB; cl00482 536230005450 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 536230005451 phosphoenolpyruvate synthase; Validated; Region: PRK06464 536230005452 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 536230005453 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 536230005454 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 536230005455 Phytochelatin synthase; Region: Phytochelatin; pfam05023 536230005456 Pro-kumamolisin, activation domain; Region: Pro-kuma_activ; pfam09286 536230005457 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 536230005458 active site 536230005459 catalytic triad; other site 536230005460 calcium binding site; other site 536230005461 Domain of unknown function (DUF299); Region: DUF299; cl00780 536230005462 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 536230005463 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 536230005464 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 536230005465 active site 536230005466 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 536230005467 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 536230005468 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 536230005469 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A...; Region: LbH_UDP-GlcNAc_AT; cd03351 536230005470 active site 536230005471 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 536230005472 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 536230005473 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 536230005474 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2,3-...; Region: LbH_LpxD; cd03352 536230005475 trimer interface; other site 536230005476 active site 536230005477 UDP-GlcNAc binding site; other site 536230005478 lipid-binding site 536230005479 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 536230005480 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 536230005481 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 536230005482 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 536230005483 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 536230005484 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 536230005485 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 536230005486 Surface antigen; Region: Bac_surface_Ag; cl03097 536230005487 zinc metallopeptidase RseP; Provisional; Region: PRK10779 536230005488 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 536230005489 active site 536230005490 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 536230005491 protein binding site; other site 536230005492 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 536230005493 putative substrate binding region; other site 536230005494 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 536230005495 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 536230005496 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 536230005497 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 536230005498 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 536230005499 catalytic residue; other site 536230005500 putative FPP diphosphate binding site; other site 536230005501 putative FPP binding hydrophobic cleft; other site 536230005502 dimer interface; other site 536230005503 putative IPP diphosphate binding site; other site 536230005504 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 536230005505 hinge region; other site 536230005506 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 536230005507 putative nucleotide binding site; other site 536230005508 uridine monophosphate binding site; other site 536230005509 homohexameric interface; other site 536230005510 elongation factor Ts; Provisional; Region: tsf; PRK09377 536230005511 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 536230005512 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 536230005513 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 536230005514 rRNA interaction site; other site 536230005515 S8 interaction site; other site 536230005516 putative laminin-1 binding site; other site 536230005517 methionine aminopeptidase; Reviewed; Region: PRK07281 536230005518 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 536230005519 active site 536230005520 PII uridylyl-transferase; Provisional; Region: PRK03059 536230005521 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536230005522 metal binding triad; other site 536230005523 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536230005524 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536230005525 Zn2+ binding site; other site 536230005526 Mg2+ binding site; other site 536230005527 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 536230005528 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 536230005529 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536230005530 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 536230005531 RNA binding surface; other site 536230005532 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 536230005533 active site 536230005534 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe...; Region: Pep_deformylase; cd00487 536230005535 active site 536230005536 catalytic residues; other site 536230005537 metal-binding site 536230005538 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 536230005539 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 536230005540 nucleotide binding pocket; other site 536230005541 K-X-D-G motif; other site 536230005542 catalytic site; other site 536230005543 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 536230005544 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 536230005545 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 536230005546 Dimer interface; other site 536230005547 BRCT sequence motif; other site 536230005548 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 536230005549 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 536230005550 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 536230005551 Walker A/P-loop; other site 536230005552 ATP binding site; other site 536230005553 Q-loop/lid; other site 536230005554 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 536230005555 Q-loop/lid; other site 536230005556 ABC transporter signature motif; other site 536230005557 Walker B; other site 536230005558 D-loop; other site 536230005559 H-loop/switch region; other site 536230005560 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536230005561 EamA-like transporter family; Region: EamA; cl01037 536230005562 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 536230005563 pyridoxal 5'-phosphate binding site; other site 536230005564 homodimer interface; other site 536230005565 catalytic residue; other site 536230005566 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 536230005567 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 536230005568 trimer interface; other site 536230005569 active site 536230005570 substrate binding site; other site 536230005571 CoA binding site; other site 536230005572 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 536230005573 putative catalytic residues; other site 536230005574 Peptidase dimerization domain; Region: M20_dimer; cl09126 536230005575 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 536230005576 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230005577 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 536230005578 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 536230005579 active site 536230005580 signature motif; other site 536230005581 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 536230005582 active site 536230005583 signature motif; other site 536230005584 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue...; Region: GSH_Peroxidase; cd00340 536230005585 catalytic residues; other site 536230005586 dimer interface; other site 536230005587 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 536230005588 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230005589 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230005590 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230005591 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 536230005592 DNA repair protein RadA; Provisional; Region: PRK11823 536230005593 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 536230005594 Walker A motif/ATP binding site; other site 536230005595 ATP binding site; other site 536230005596 Walker B motif; other site 536230005597 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536230005598 alanine racemase; Reviewed; Region: dadX; PRK03646 536230005599 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 536230005600 active site 536230005601 pyridoxal 5'-phosphate (PLP) binding site; other site 536230005602 substrate binding site; other site 536230005603 catalytic residues; other site 536230005604 dimer interface; other site 536230005605 lysophospholipid transporter LplT; Provisional; Region: PRK11195 536230005606 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230005607 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 536230005608 dimer interface; other site 536230005609 substrate binding site; other site 536230005610 ATP binding site; other site 536230005611 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 536230005612 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 536230005613 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230005614 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 536230005615 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 536230005616 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 536230005617 acyl-CoA binding pocket; other site 536230005618 CoA binding site; other site 536230005619 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 536230005620 DEAD-like helicases superfamily; Region: DEXDc; smart00487 536230005621 ATP binding site; other site 536230005622 Mg++ binding site; other site 536230005623 motif III; other site 536230005624 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 536230005625 nucleotide binding region; other site 536230005626 ATP-binding site; other site 536230005627 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 536230005628 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 536230005629 tetramer interface; other site 536230005630 active site 536230005631 Mg2+/Mn2+ binding site; other site 536230005632 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 536230005633 Ligand Binding Site; other site 536230005634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230005635 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 536230005636 putative effector binding pocket; other site 536230005637 dimerization interface; other site 536230005638 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 536230005639 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230005640 malate synthase A; Region: malate_syn_A; TIGR01344 536230005641 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 536230005642 active site 536230005643 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 536230005644 putative active site pocket; other site 536230005645 dimerization interface; other site 536230005646 putative catalytic residue; other site 536230005647 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 536230005648 Cupin domain; Region: Cupin_2; cl09118 536230005649 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230005650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230005651 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230005652 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 536230005653 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536230005654 active site 536230005655 HIGH motif; other site 536230005656 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536230005657 KMSKS motif; other site 536230005658 hypothetical protein; Provisional; Region: PRK10279 536230005659 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 536230005660 nucleophile elbow; other site 536230005661 NlpC/P60 family; Region: NLPC_P60; cl11438 536230005662 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 536230005663 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 536230005664 Walker A/P-loop; other site 536230005665 ATP binding site; other site 536230005666 Q-loop/lid; other site 536230005667 ABC transporter signature motif; other site 536230005668 Walker B; other site 536230005669 D-loop; other site 536230005670 H-loop/switch region; other site 536230005671 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230005672 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 536230005673 Walker A/P-loop; other site 536230005674 ATP binding site; other site 536230005675 Q-loop/lid; other site 536230005676 ABC transporter signature motif; other site 536230005677 Walker B; other site 536230005678 D-loop; other site 536230005679 H-loop/switch region; other site 536230005680 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230005681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230005682 dimer interface; other site 536230005683 conserved gate region; other site 536230005684 putative PBP binding loops; other site 536230005685 ABC-ATPase subunit interface; other site 536230005686 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230005687 dimer interface; other site 536230005688 conserved gate region; other site 536230005689 putative PBP binding loops; other site 536230005690 ABC-ATPase subunit interface; other site 536230005691 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 536230005692 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 536230005693 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 536230005694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005695 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 536230005696 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 536230005697 putative [Fe4-S4] binding site; other site 536230005698 putative molybdopterin cofactor binding site; other site 536230005699 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 536230005700 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 536230005701 putative molybdopterin cofactor binding site; other site 536230005702 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 536230005703 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 536230005704 FAD binding pocket; other site 536230005705 FAD binding motif; other site 536230005706 phosphate binding motif; other site 536230005707 beta-alpha-beta structure motif; other site 536230005708 NAD binding pocket; other site 536230005709 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 536230005710 Ferredoxin [Energy production and conversion]; Region: COG1146 536230005711 4Fe-4S binding domain; Region: Fer4; pfam00037 536230005712 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 536230005713 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230005714 methionine aminopeptidase; Reviewed; Region: PRK07281 536230005715 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 536230005716 active site 536230005717 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 536230005718 argininosuccinate lyase; Provisional; Region: PRK02186 536230005719 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230005720 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230005721 active sites 536230005722 tetramer interface; other site 536230005723 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 536230005724 pyridoxal 5'-phosphate binding site; other site 536230005725 catalytic residue; other site 536230005726 dimer interface; other site 536230005727 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230005728 G1 box; other site 536230005729 GTP/Mg2+ binding site; other site 536230005730 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 536230005731 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 536230005732 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 536230005733 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 536230005734 Active Sites; active site 536230005735 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 536230005736 active site 536230005737 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 536230005738 pyridoxal 5'-phosphate binding pocket; other site 536230005739 catalytic residue; other site 536230005740 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 536230005741 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536230005742 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 536230005743 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 536230005744 PYR/PP interface; other site 536230005745 dimer interface; other site 536230005746 TPP binding site; other site 536230005747 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 pentose phosphate pathway and provides precursors for nucleotide...; Region: TPP_TK; cd02012 536230005748 TPP-binding site; other site 536230005749 dimer interface; other site 536230005750 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 536230005751 S-adenosylmethionine binding site; other site 536230005752 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 536230005753 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 536230005754 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 536230005755 Condensation domain; Region: Condensation; cl09290 536230005756 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230005757 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230005758 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230005759 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230005760 Condensation domain; Region: Condensation; cl09290 536230005761 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536230005762 Condensation domain; Region: Condensation; cl09290 536230005763 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230005764 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230005765 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230005766 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230005767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 536230005768 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 536230005769 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230005770 putative substrate translocation pore; other site 536230005771 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230005772 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230005773 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230005774 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230005775 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation...; Region: APSK; cd02027 536230005776 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 536230005777 ligand-binding site; other site 536230005778 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 536230005779 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 536230005780 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 536230005781 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 536230005782 active site 536230005783 catalytic triad; other site 536230005784 oxyanion hole; other site 536230005785 Autotransporter beta-domain; Region: Autotransporter; cl02365 536230005786 aspartate kinase; Reviewed; Region: PRK06635 536230005787 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 536230005788 putative nucleotide binding site; other site 536230005789 putative catalytic residues; other site 536230005790 putative Mg ion binding site; other site 536230005791 putative aspartate binding site; other site 536230005792 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 536230005793 putative allosteric regulatory site; other site 536230005794 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 536230005795 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 536230005796 Ligand Binding Site; other site 536230005797 TilS substrate binding domain; Region: TilS; pfam09179 536230005798 B3/4 domain; Region: B3_4; cl11458 536230005799 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 536230005800 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230005801 endonuclease III; Region: ENDO3c; smart00478 536230005802 minor groove reading motif; other site 536230005803 helix-hairpin-helix signature motif; other site 536230005804 substrate binding pocket; other site 536230005805 active site 536230005806 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 536230005807 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536230005808 active site 536230005809 HIGH motif; other site 536230005810 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536230005811 KMSKS motif; other site 536230005812 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 536230005813 tRNA binding surface; other site 536230005814 anticodon binding site; other site 536230005815 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 536230005816 binding surface 536230005817 TPR motif; other site 536230005818 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 536230005819 substrate binding site; other site 536230005820 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 536230005821 substrate binding site; other site 536230005822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 536230005823 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 536230005824 putative active site; other site 536230005825 putative metal binding site; other site 536230005826 serine O-acetyltransferase; Region: cysE; TIGR01172 536230005827 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of L...; Region: LbH_SAT; cd03354 536230005828 trimer interface; other site 536230005829 active site 536230005830 substrate binding site; other site 536230005831 CoA binding site; other site 536230005832 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 536230005833 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 536230005834 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 536230005835 active site 536230005836 dimerization interface; other site 536230005837 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 536230005838 Uncharacterized conserved protein [Function unknown]; Region: COG4104 536230005839 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 536230005840 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 536230005841 catalytic residue; other site 536230005842 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly...; Region: RICIN; cd00161 536230005843 putative sugar binding sites; other site 536230005844 Q-X-W motif; other site 536230005845 Phage protein D [General function prediction only]; Region: COG3500; cl12180 536230005846 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 536230005847 Phage Tail Protein X; Region: Phage_tail_X; cl02088 536230005848 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 536230005849 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 536230005850 Phage tail tube protein FII; Region: Phage_tube; cl01390 536230005851 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 536230005852 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536230005853 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 536230005854 Baseplate J-like protein; Region: Baseplate_J; cl01294 536230005855 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 536230005856 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 536230005857 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 536230005858 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 536230005859 oligomer interface; other site 536230005860 active site residues 536230005861 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 536230005862 Protein of unknown function (DUF2481); Region: DUF2481; cl05448 536230005863 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 536230005864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 536230005865 Virulence-associated protein E; Region: VirE; cl12099 536230005866 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 536230005867 Phage integrase family; Region: Phage_integrase; pfam00589 536230005868 DNA binding site 536230005869 Int/Topo IB signature motif; other site 536230005870 active site 536230005871 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 536230005872 MutS domain I; Region: MutS_I; pfam01624 536230005873 MutS domain II; Region: MutS_II; pfam05188 536230005874 MutS domain III; Region: MutS_III; cl04977 536230005875 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 536230005876 Walker A/P-loop; other site 536230005877 ATP binding site; other site 536230005878 Q-loop/lid; other site 536230005879 ABC transporter signature motif; other site 536230005880 Walker B; other site 536230005881 D-loop; other site 536230005882 H-loop/switch region; other site 536230005883 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 536230005884 Uncharacterized conserved protein [Function unknown]; Region: COG2850 536230005885 Cupin superfamily protein; Region: Cupin_4; pfam08007 536230005886 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230005887 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 536230005888 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 536230005889 dihydrodipicolinate synthase; Region: dapA; TIGR00674 536230005890 dimer interface; other site 536230005891 active site 536230005892 catalytic residue; other site 536230005893 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 536230005894 active site 536230005895 HIGH motif; other site 536230005896 dimer interface; other site 536230005897 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230005898 KMSKS motif; other site 536230005899 active site 536230005900 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 536230005901 active site 536230005902 putative substrate binding region; other site 536230005903 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 536230005904 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 536230005905 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 536230005906 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 536230005907 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230005908 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 536230005909 dinuclear metal binding motif; other site 536230005910 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 536230005911 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 536230005912 trimer interface; other site 536230005913 putative metal binding site; other site 536230005914 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 536230005915 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 536230005916 dimerization interface; other site 536230005917 domain crossover interface; other site 536230005918 redox-dependent activation switch; other site 536230005919 Septum formation initiator; Region: DivIC; cl11433 536230005920 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 536230005921 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 536230005922 dimer interface; other site 536230005923 metal-binding site 536230005924 substrate binding pocket; other site 536230005925 NeuB family; Region: NeuB; cl00496 536230005926 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536230005927 CTP synthetase; Validated; Region: pyrG; PRK05380 536230005928 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer...; Region: CTGs; cd03113 536230005929 Catalytic site; other site 536230005930 active site 536230005931 UTP binding site; other site 536230005932 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 536230005933 active site 536230005934 putative oxyanion hole; other site 536230005935 catalytic triad; other site 536230005936 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230005937 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230005938 hypothetical protein; Provisional; Region: PRK11539 536230005939 Competence protein; Region: Competence; cl00471 536230005940 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230005941 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536230005942 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 536230005943 active site 536230005944 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 536230005945 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 536230005946 Walker A/P-loop; other site 536230005947 ATP binding site; other site 536230005948 Q-loop/lid; other site 536230005949 ABC transporter signature motif; other site 536230005950 Walker B; other site 536230005951 D-loop; other site 536230005952 H-loop/switch region; other site 536230005953 LolC/E family; Region: lolCE; TIGR02212 536230005954 Predicted permease; Region: FtsX; cl11418 536230005955 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl12023 536230005956 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 536230005957 DHH family; Region: DHH; pfam01368 536230005958 DHHA1 domain; Region: DHHA1; pfam02272 536230005959 peptide chain release factor 2; Validated; Region: prfB; PRK00578 536230005960 RF-1 domain; Region: RF-1; cl02875 536230005961 RF-1 domain; Region: RF-1; cl02875 536230005962 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 536230005963 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-...; Region: LysRS_N; cd04322 536230005964 dimer interface; other site 536230005965 putative anticodon binding site; other site 536230005966 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 536230005967 motif 1; other site 536230005968 active site 536230005969 motif 2; other site 536230005970 motif 3; other site 536230005971 Protein of unknown function (DUF528); Region: DUF528; cl01123 536230005972 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 536230005973 chaperone protein HscA; Provisional; Region: hscA; PRK05183 536230005974 co-chaperone HscB; Provisional; Region: hscB; PRK03578 536230005975 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cl02542 536230005976 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 536230005977 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 536230005978 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 536230005979 trimerization site; other site 536230005980 active site 536230005981 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 536230005982 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 536230005983 pyridoxal 5'-phosphate binding pocket; other site 536230005984 catalytic residue; other site 536230005985 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230005986 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 536230005987 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 536230005988 Low molecular weight phosphatase family; Region: LMWPc; cd00115 536230005989 active site 536230005990 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 536230005991 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 536230005992 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl00255 536230005993 Cysteine-rich domain; Region: CCG; pfam02754 536230005994 Cysteine-rich domain; Region: CCG; pfam02754 536230005995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230005996 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230005997 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230005998 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 536230005999 Beta-lactamase; Region: Beta-lactamase; cl01009 536230006000 Phasin protein; Region: Phasin_2; cl11491 536230006001 Transposase domain (DUF772); Region: DUF772; cl12084 536230006002 Transposase DDE domain; Region: Transposase_11; pfam01609 536230006003 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 536230006004 E3 interaction surface; other site 536230006005 lipoyl attachment site; other site 536230006006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006007 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 536230006008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006009 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 536230006010 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 536230006011 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 536230006012 E3 interaction surface; other site 536230006013 lipoyl attachment site; other site 536230006014 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 536230006015 E3 interaction surface; other site 536230006016 lipoyl attachment site; other site 536230006017 e3 binding domain; Region: E3_binding; pfam02817 536230006018 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 536230006019 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 536230006020 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 536230006021 dimer interface; other site 536230006022 TPP-binding site; other site 536230006023 PAS domain S-box; Region: sensory_box; TIGR00229 536230006024 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 536230006025 putative active site; other site 536230006026 heme pocket; other site 536230006027 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 536230006028 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230006029 dimer interface; other site 536230006030 phosphorylation site 536230006031 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 536230006032 ATP binding site; other site 536230006033 Mg2+ binding site; other site 536230006034 G-X-G motif; other site 536230006035 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 536230006036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230006037 active site 536230006038 phosphorylation site 536230006039 intermolecular recognition site; other site 536230006040 dimerization interface; other site 536230006041 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230006042 DNA binding residues 536230006043 dimerization interface; other site 536230006044 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 536230006045 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 536230006046 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 536230006047 homodimer interface; other site 536230006048 NADP binding site; other site 536230006049 substrate binding site; other site 536230006050 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 536230006051 Peptidase family M3 dipeptidyl carboxypeptidase (DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This metal-binding M3A family also includes oligopeptidase A (OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off the C-termini of various peptides and...; Region: M3A_DCP_Oligopeptidase_A; cd06456 536230006052 active site 536230006053 zinc binding site; other site 536230006054 DNA polymerase IV; Validated; Region: PRK02406 536230006055 DNA Polymerase IV/Kappa; Region: Pol_IV_kappa; cd03586 536230006056 active site 536230006057 DNA binding site 536230006058 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 536230006059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230006060 putative substrate translocation pore; other site 536230006061 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 536230006062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230006063 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 536230006064 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_Nitrate-R-NarG-like; cd02750 536230006065 [4Fe-4S] binding site; other site 536230006066 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 536230006067 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 536230006068 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 536230006069 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 536230006070 molybdopterin cofactor binding site; other site 536230006071 nitrate reductase, beta subunit; Region: narH; TIGR01660 536230006072 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 536230006073 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 536230006074 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 536230006075 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 536230006076 dimerization interface; other site 536230006077 GAF domain; Region: GAF; cl00853 536230006078 Histidine kinase; Region: HisKA_3; pfam07730 536230006079 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 536230006080 transcriptional regulator NarL; Provisional; Region: PRK10651 536230006081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230006082 active site 536230006083 phosphorylation site 536230006084 intermolecular recognition site; other site 536230006085 dimerization interface; other site 536230006086 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230006087 DNA binding residues 536230006088 dimerization interface; other site 536230006089 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 536230006090 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 536230006091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230006092 active site 536230006093 phosphorylation site 536230006094 intermolecular recognition site; other site 536230006095 dimerization interface; other site 536230006096 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230006097 Walker A motif; other site 536230006098 ATP binding site; other site 536230006099 Walker B motif; other site 536230006100 arginine finger; other site 536230006101 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 536230006102 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 536230006103 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 536230006104 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 536230006105 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 536230006106 ATP binding site; other site 536230006107 Mg2+ binding site; other site 536230006108 G-X-G motif; other site 536230006109 glutamine synthetase; Provisional; Region: glnA; PRK09469 536230006110 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 536230006111 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 536230006112 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 536230006113 active site residue 536230006114 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 536230006115 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 536230006116 putative MPT binding site; other site 536230006117 Protein of unknown function (DUF540); Region: DUF540; cl01126 536230006118 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 536230006119 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 536230006120 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 536230006121 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 536230006122 ATP binding site; other site 536230006123 putative Mg++ binding site; other site 536230006124 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 536230006125 nucleotide binding region; other site 536230006126 ATP-binding site; other site 536230006127 Helicase associated domain (HA2); Region: HA2; cl04503 536230006128 Domain of unknown function (DUF1605); Region: DUF1605; pfam07717 536230006129 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 536230006130 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 536230006131 N-acetylglutamate synthase; Validated; Region: PRK05279 536230006132 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 N-...; Region: AAK_NAGS-ABP; cd04237 536230006133 putative feedback inhibition sensing region; other site 536230006134 putative nucleotide binding site; other site 536230006135 putative substrate binding site; other site 536230006136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230006137 Coenzyme A binding pocket; other site 536230006138 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 536230006139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230006140 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230006141 putative substrate translocation pore; other site 536230006142 CoA-transferase family III; Region: CoA_transf_3; cl00778 536230006143 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230006144 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230006145 active site 536230006146 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536230006147 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230006148 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 536230006149 dimerization interface; other site 536230006150 putative aminotransferase; Validated; Region: PRK07480 536230006151 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 536230006152 inhibitor-cofactor binding pocket; inhibition site 536230006153 pyridoxal 5'-phosphate binding site; other site 536230006154 catalytic residue; other site 536230006155 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 536230006156 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 536230006157 Peptidase C26; Region: Peptidase_C26; pfam07722 536230006158 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 536230006159 catalytic triad; other site 536230006160 N-formylglutamate amidohydrolase; Region: FGase; cl01522 536230006161 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 536230006162 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 536230006163 active site 536230006164 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 536230006165 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria...; Region: Imidazolone-5PH; cd01296 536230006166 active site 536230006167 HutD; Region: HutD; cl01532 536230006168 urocanate hydratase; Provisional; Region: PRK05414 536230006169 urocanate hydratase; Region: hutU; TIGR01228 536230006170 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 536230006171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230006172 DNA binding site 536230006173 UTRA domain; Region: UTRA; cl06649 536230006174 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 536230006175 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 536230006176 active sites 536230006177 tetramer interface; other site 536230006178 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 536230006179 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 536230006180 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 536230006181 Autoinducer binding domain; Region: Autoind_bind; pfam03472 536230006182 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 536230006183 DNA binding residues 536230006184 dimerization interface; other site 536230006185 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation...; Region: APSK; cd02027 536230006186 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 536230006187 ligand-binding site; other site 536230006188 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 536230006189 DNA photolyase; Region: DNA_photolyase; pfam00875 536230006190 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 536230006191 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 536230006192 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230006193 Di-iron ligands; other site 536230006194 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...; Region: Heme_Cu_Oxidase_I; cl00275 536230006195 Domain of unknown function DUF59; Region: DUF59; cl00941 536230006196 NnrS protein; Region: NnrS; cl01258 536230006197 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 536230006198 Class III ribonucleotide reductase; Region: RNR_III; cd01675 536230006199 effector binding site; other site 536230006200 active site 536230006201 Zn binding site; other site 536230006202 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 536230006203 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 536230006204 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 536230006205 FeS/SAM binding site; other site 536230006206 DGC domain; Region: DGC; cl01742 536230006207 SCP-2 sterol transfer family; Region: SCP2; cl01225 536230006208 Peptidase family U32; Region: Peptidase_U32; pfam01136 536230006209 Peptidase family U32; Region: Peptidase_U32; pfam01136 536230006210 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230006211 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 536230006212 FMN binding site; other site 536230006213 substrate binding site; other site 536230006214 putative catalytic residue; other site 536230006215 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230006216 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 536230006217 ligand binding site; other site 536230006218 flexible hinge region; other site 536230006219 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 536230006220 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; cl14056 536230006221 HemN C-terminal region; Region: HemN_C; pfam06969 536230006222 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 536230006223 dimerization interface; other site 536230006224 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230006225 NnrS protein; Region: NnrS; cl01258 536230006226 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 536230006227 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 536230006228 FeS assembly ATPase SufC; Region: sufC; TIGR01978 536230006229 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 536230006230 Walker A/P-loop; other site 536230006231 ATP binding site; other site 536230006232 Q-loop/lid; other site 536230006233 ABC transporter signature motif; other site 536230006234 Walker B; other site 536230006235 D-loop; other site 536230006236 H-loop/switch region; other site 536230006237 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 536230006238 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 536230006239 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 536230006240 pyridoxal 5'-phosphate binding pocket; other site 536230006241 catalytic residue; other site 536230006242 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 536230006243 trimerization site; other site 536230006244 active site 536230006245 Domain of unknown function DUF59; Region: DUF59; cl00941 536230006246 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-...; Region: SirA_YedF_YeeD; cl00436 536230006247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230006248 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 536230006249 cation-binding hemerythrin HHE family protein; Provisional; Region: PRK01917 536230006250 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 536230006251 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 536230006252 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 536230006253 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 536230006254 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 536230006255 D-pathway; other site 536230006256 Putative ubiquinol binding site; other site 536230006257 Low-spin heme (heme b) binding site; other site 536230006258 Putative water exit pathway; other site 536230006259 Binuclear center (heme o3/CuB); other site 536230006260 K-pathway; other site 536230006261 Putative proton exit pathway; other site 536230006262 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 536230006263 Subunit I/III interface; other site 536230006264 Subunit III/IV interface; other site 536230006265 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 536230006266 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 536230006267 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230006268 putative di-iron ligands; other site 536230006269 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 536230006270 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230006271 substrate binding pocket; other site 536230006272 membrane-bound complex binding site; other site 536230006273 hinge residues; other site 536230006274 GST_C family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens...; Region: GST_C_Beta; cd03188 536230006275 dimer interface; other site 536230006276 N-terminal domain interface; other site 536230006277 substrate binding pocket (H-site); other site 536230006278 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 536230006279 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 536230006280 active site 536230006281 Zn-binding site; other site 536230006282 Succinylarginine dihydrolase; Region: AstB; cl01511 536230006283 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 536230006284 NAD(P) binding site; other site 536230006285 catalytic residues; other site 536230006286 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 536230006287 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 536230006288 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 536230006289 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 536230006290 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 536230006291 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 536230006292 inhibitor-cofactor binding pocket; inhibition site 536230006293 pyridoxal 5'-phosphate binding site; other site 536230006294 catalytic residue; other site 536230006295 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230006296 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 536230006297 conserved cys residue; other site 536230006298 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230006299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230006300 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 536230006301 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 536230006302 Walker A/P-loop; other site 536230006303 ATP binding site; other site 536230006304 Q-loop/lid; other site 536230006305 ABC transporter signature motif; other site 536230006306 Walker B; other site 536230006307 D-loop; other site 536230006308 H-loop/switch region; other site 536230006309 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230006310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230006311 dimer interface; other site 536230006312 conserved gate region; other site 536230006313 putative PBP binding loops; other site 536230006314 ABC-ATPase subunit interface; other site 536230006315 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230006316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230006317 dimer interface; other site 536230006318 conserved gate region; other site 536230006319 putative PBP binding loops; other site 536230006320 ABC-ATPase subunit interface; other site 536230006321 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 536230006322 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 536230006323 YdjC-like protein; Region: YdjC; cl01344 536230006324 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 536230006325 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 536230006326 B12 binding site; other site 536230006327 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; cl14056 536230006328 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 536230006329 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 536230006330 ligand binding site; other site 536230006331 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 536230006332 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 536230006333 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 536230006334 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230006335 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230006336 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 536230006337 dimer interface; other site 536230006338 pyridoxal binding site; other site 536230006339 ATP binding site; other site 536230006340 Pseudomonas-type; Region: PC_PLC; TIGR03396 536230006341 Phosphoesterase family; Region: Phosphoesterase; cl10627 536230006342 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230006343 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230006344 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230006345 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 536230006346 dimerization interface; other site 536230006347 ligand binding site; other site 536230006348 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 536230006349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006350 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 536230006351 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a...; Region: GT1_AviGT4_like; cd03802 536230006352 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230006353 putative ADP-binding pocket; other site 536230006354 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536230006355 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 536230006356 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 536230006357 Walker A/P-loop; other site 536230006358 ATP binding site; other site 536230006359 Q-loop/lid; other site 536230006360 ABC transporter signature motif; other site 536230006361 Walker B; other site 536230006362 D-loop; other site 536230006363 H-loop/switch region; other site 536230006364 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is...; Region: GT1_TPS; cd03788 536230006365 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 536230006366 active site 536230006367 homotetramer interface; other site 536230006368 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230006369 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 536230006370 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 536230006371 Cu(I) binding site; other site 536230006372 Protein of unknown function (DUF461); Region: DUF461; cl01071 536230006373 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 536230006374 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230006375 Pirin-related protein [General function prediction only]; Region: COG1741 536230006376 Cupin domain; Region: Cupin_2; cl09118 536230006377 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 536230006378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230006379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230006380 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 536230006381 putative effector binding pocket; other site 536230006382 putative dimerization interface; other site 536230006383 GAF domain; Region: GAF; cl00853 536230006384 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 536230006385 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 536230006386 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 536230006387 UvrB/uvrC motif; Region: UVR; pfam02151 536230006388 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 536230006389 ERCC4-type nuclease [DNA replication, recombination, and repair]; Region: MUS81; COG1948 536230006390 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 536230006391 elongation factor P; Validated; Region: PRK00529 536230006392 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 536230006393 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 536230006394 RNA binding site; other site 536230006395 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 536230006396 RNA binding site; other site 536230006397 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230006398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230006399 active site 536230006400 phosphorylation site 536230006401 intermolecular recognition site; other site 536230006402 dimerization interface; other site 536230006403 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230006404 Walker A motif; other site 536230006405 ATP binding site; other site 536230006406 Walker B motif; other site 536230006407 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 536230006408 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 536230006409 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 536230006410 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 536230006411 active site 536230006412 hydrophilic channel; other site 536230006413 dimerization interface; other site 536230006414 catalytic residues; other site 536230006415 active site lid 536230006416 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 536230006417 Recombination protein O N terminal; Region: RecO_N; pfam11967 536230006418 Recombination protein O C terminal; Region: RecO_C; pfam02565 536230006419 GTP-binding protein Era; Reviewed; Region: era; PRK00089 536230006420 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 536230006421 G1 box; other site 536230006422 GTP/Mg2+ binding site; other site 536230006423 Switch I region; other site 536230006424 G2 box; other site 536230006425 Switch II region; other site 536230006426 G3 box; other site 536230006427 G4 box; other site 536230006428 G5 box; other site 536230006429 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 536230006430 ribonuclease III; Provisional; Region: PRK14718 536230006431 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-...; Region: RIBOc; cd00593 536230006432 dimerization interface; other site 536230006433 active site 536230006434 metal-binding site 536230006435 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase...; Region: DSRM; cd00048 536230006436 signal peptidase I; Provisional; Region: PRK10861 536230006437 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 536230006438 Catalytic site; other site 536230006439 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 536230006440 GTP-binding protein LepA; Provisional; Region: PRK05433 536230006441 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 536230006442 G1 box; other site 536230006443 putative GEF interaction site; other site 536230006444 GTP/Mg2+ binding site; other site 536230006445 Switch I region; other site 536230006446 G2 box; other site 536230006447 G3 box; other site 536230006448 Switch II region; other site 536230006449 G4 box; other site 536230006450 G5 box; other site 536230006451 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-...; Region: lepA_II; cd03699 536230006452 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 536230006453 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 536230006454 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 536230006455 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 536230006456 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 536230006457 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 536230006458 protein binding site; other site 536230006459 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 536230006460 protein binding site; other site 536230006461 MucB/RseB family; Region: MucB_RseB; cl01145 536230006462 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 536230006463 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 536230006464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230006465 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 536230006466 DNA binding residues 536230006467 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 536230006468 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 536230006469 dimer interface; other site 536230006470 active site 536230006471 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230006472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006473 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 536230006474 Acyl transferase domain; Region: Acyl_transf_1; cl08282 536230006475 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 536230006476 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536230006477 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 536230006478 dimer interface; other site 536230006479 active site 536230006480 CoA binding pocket; other site 536230006481 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 536230006482 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 536230006483 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 536230006484 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 536230006485 active site 536230006486 dimer interface; other site 536230006487 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 536230006488 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 536230006489 tandem repeat interface; other site 536230006490 oligomer interface; other site 536230006491 active site residues 536230006492 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)...; Region: Rieske; cd03467 536230006493 iron-sulfur cluster; other site 536230006494 [2Fe-2S] cluster binding site; other site 536230006495 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 536230006496 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 536230006497 motif II; other site 536230006498 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 536230006499 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 536230006500 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 536230006501 active site 536230006502 ribonuclease E; Reviewed; Region: rne; PRK10811 536230006503 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 536230006504 homodimer interface; other site 536230006505 oligonucleotide binding site; other site 536230006506 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 536230006507 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 536230006508 FeS/SAM binding site; other site 536230006509 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 536230006510 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 536230006511 GTP binding site; other site 536230006512 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 536230006513 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 536230006514 dimer interface; other site 536230006515 putative functional site; other site 536230006516 putative MPT binding site; other site 536230006517 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230006518 RmuC family; Region: RmuC; pfam02646 536230006519 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 536230006520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006521 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 536230006522 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 536230006523 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 536230006524 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: PncB_like; cd01401 536230006525 active site 536230006526 Ferredoxin [Energy production and conversion]; Region: COG1146 536230006527 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 536230006528 CreA protein; Region: CreA; cl01154 536230006529 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 536230006530 multidrug efflux protein; Reviewed; Region: PRK01766 536230006531 MatE; Region: MatE; pfam01554 536230006532 MatE; Region: MatE; pfam01554 536230006533 fumarate hydratase; Reviewed; Region: fumC; PRK00485 536230006534 Class II fumarases; Region: Fumarase_classII; cd01362 536230006535 active site 536230006536 tetramer interface; other site 536230006537 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 536230006538 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 536230006539 dimerization interface; other site 536230006540 putative DNA binding site; other site 536230006541 putative Zn2+ binding site; other site 536230006542 FecR protein; Region: FecR; pfam04773 536230006543 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 536230006544 dimerization interface; other site 536230006545 active site 536230006546 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230006547 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230006548 Walker A motif; other site 536230006549 ATP binding site; other site 536230006550 Walker B motif; other site 536230006551 arginine finger; other site 536230006552 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 536230006553 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230006554 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230006555 Walker A motif; other site 536230006556 ATP binding site; other site 536230006557 Walker B motif; other site 536230006558 arginine finger; other site 536230006559 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10...; Region: DHFR; cd00209 536230006560 folate binding site; other site 536230006561 NADP+ binding site; other site 536230006562 Transposase domain (DUF772); Region: DUF772; cl12084 536230006563 Transposase DDE domain; Region: Transposase_11; pfam01609 536230006564 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 536230006565 Protein of unknown function (DUF615); Region: DUF615; cl01147 536230006566 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 536230006567 MPT binding site; other site 536230006568 trimer interface; other site 536230006569 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 536230006570 putative active site; other site 536230006571 putative substrate binding site; other site 536230006572 catalytic site; other site 536230006573 dimer interface; other site 536230006574 Peptidase family M48; Region: Peptidase_M48; cl12018 536230006575 ribosome-associated GTPase; Reviewed; Region: PRK00098 536230006576 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 536230006577 GTPase/OB domain interface; other site 536230006578 GTPase/Zn-binding domain interface; other site 536230006579 GTP/Mg2+ binding site; other site 536230006580 G4 box; other site 536230006581 G5 box; other site 536230006582 G1 box; other site 536230006583 Switch I region; other site 536230006584 G2 box; other site 536230006585 G3 box; other site 536230006586 Switch II region; other site 536230006587 CobD/Cbib protein; Region: CobD_Cbib; cl00561 536230006588 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 536230006589 putative active site; other site 536230006590 putative CoA binding site; other site 536230006591 nudix motif; other site 536230006592 metal-binding site 536230006593 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230006594 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 536230006595 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 536230006596 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 536230006597 RimM N-terminal domain; Region: RimM; pfam01782 536230006598 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 536230006599 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 536230006600 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 536230006601 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 536230006602 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 536230006603 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 536230006604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230006605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006606 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 536230006607 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 536230006608 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230006609 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230006610 active site 536230006611 etfA (electron transfer flavoprotein alpha subunit); Provisional; Region: PLN00022 536230006612 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 536230006613 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536230006614 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 536230006615 Ligand binding site; other site 536230006616 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 536230006617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230006618 dimer interface; other site 536230006619 conserved gate region; other site 536230006620 ABC-ATPase subunit interface; other site 536230006621 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 536230006622 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein...; Region: ABC_MetN_methionine_transporter; cd03258 536230006623 Walker A/P-loop; other site 536230006624 ATP binding site; other site 536230006625 Q-loop/lid; other site 536230006626 ABC transporter signature motif; other site 536230006627 Walker B; other site 536230006628 D-loop; other site 536230006629 H-loop/switch region; other site 536230006630 NIL domain; Region: NIL; pfam09383 536230006631 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 536230006632 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230006633 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 536230006634 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 536230006635 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 536230006636 cysteine synthases; Region: cysKM; TIGR01136 536230006637 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 536230006638 dimer interface; other site 536230006639 pyridoxal 5'-phosphate binding site; other site 536230006640 catalytic residue; other site 536230006641 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 536230006642 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 536230006643 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 536230006644 putative ribose interaction site; other site 536230006645 putative ADP binding site; other site 536230006646 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 536230006647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006648 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 536230006649 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 536230006650 tetratricopeptide repeat protein; Provisional; Region: PRK11788 536230006651 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 536230006652 binding surface 536230006653 TPR motif; other site 536230006654 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 536230006655 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher...; Region: HU_IHF; cd00591 536230006656 IHF dimer interface; other site 536230006657 IHF - DNA interface; other site 536230006658 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 536230006659 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 536230006660 RNA binding site; other site 536230006661 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 536230006662 RNA binding site; other site 536230006663 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 536230006664 RNA binding site; other site 536230006665 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 536230006666 RNA binding site; other site 536230006667 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 536230006668 RNA binding site; other site 536230006669 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 536230006670 RNA binding site; other site 536230006671 cytidylate kinase; Provisional; Region: cmk; PRK00023 536230006672 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 536230006673 CMP-binding site; other site 536230006674 The sites determining sugar specificity; other site 536230006675 bifunctional prephenate dehydrogenase/3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK11861 536230006676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006677 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 536230006678 hinge; other site 536230006679 active site 536230006680 Chorismate mutase type II; Region: CM_2; cl00693 536230006681 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 536230006682 Prephenate dehydratase; Region: PDT; pfam00800 536230006683 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 536230006684 putative L-Phe binding site; other site 536230006685 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...; Region: PSAT_like; cd00611 536230006686 homodimer interface; other site 536230006687 substrate-cofactor binding pocket; other site 536230006688 pyridoxal 5'-phosphate binding site; other site 536230006689 catalytic residue; other site 536230006690 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 536230006691 DNA gyrase subunit A; Validated; Region: PRK05560 536230006692 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 536230006693 CAP-like domain; other site 536230006694 active site 536230006695 primary dimer interface; other site 536230006696 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230006697 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230006698 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230006699 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230006700 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230006701 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230006702 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230006703 ligand binding site; other site 536230006704 3-demethylubiquinone-9 3-methyltransferase; Provisional; Region: PRK05134 536230006705 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 536230006706 S-adenosylmethionine binding site; other site 536230006707 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 536230006708 motif II; other site 536230006709 integrase; Provisional; Region: PRK09692 536230006710 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 536230006711 Int/Topo IB signature motif; other site 536230006712 active site 536230006713 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 536230006714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 536230006715 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...; Region: TOPRIM_primases; cd01029 536230006716 active site 536230006717 metal-binding site 536230006718 interdomain interaction site; other site 536230006719 Domain of unknown function (DUF927); Region: DUF927; cl12098 536230006720 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 536230006721 Protein of unknown function DUF262; Region: DUF262; pfam03235 536230006722 Uncharacterized conserved protein (DUF2081); Region: DUF2081; cl09179 536230006723 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 536230006724 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230006725 catalytic residues; other site 536230006726 catalytic nucleophile; other site 536230006727 Presynaptic Site I dimer interface; other site 536230006728 Synaptic Antiparallel dimer interface; other site 536230006729 Synaptic Flat tetramer interface; other site 536230006730 Synaptic Site I dimer interface; other site 536230006731 DNA binding site 536230006732 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 536230006733 DNA-binding interface; DNA binding site 536230006734 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230006735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230006736 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 536230006737 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 536230006738 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 536230006739 putative dimer interface; other site 536230006740 [2Fe-2S] cluster binding site; other site 536230006741 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 536230006742 putative dimer interface; other site 536230006743 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 536230006744 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 536230006745 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 536230006746 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 536230006747 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 536230006748 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 536230006749 catalytic loop; other site 536230006750 iron binding site; other site 536230006751 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 536230006752 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_Formate-Dh-H; cd02753 536230006753 [4Fe-4S] binding site; other site 536230006754 molybdopterin cofactor binding site; other site 536230006755 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of...; Region: MopB_CT_Fdh-Nap-like; cd00508 536230006756 molybdopterin cofactor binding site; other site 536230006757 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 536230006758 hypothetical protein; Provisional; Region: PRK06184 536230006759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006760 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 536230006761 binding surface 536230006762 TPR motif; other site 536230006763 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 536230006764 binding surface 536230006765 TPR motif; other site 536230006766 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 536230006767 TPR motif; other site 536230006768 binding surface 536230006769 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 536230006770 binding surface 536230006771 TPR motif; other site 536230006772 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 536230006773 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230006774 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230006775 putative substrate translocation pore; other site 536230006776 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 536230006777 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 536230006778 catalytic triad; other site 536230006779 amidase; Provisional; Region: PRK07056 536230006780 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 536230006781 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 536230006782 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 536230006783 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 536230006784 adenosine deaminase; Provisional; Region: PRK09358 536230006785 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 536230006786 active site 536230006787 purine riboside binding site; other site 536230006788 Permease family; Region: Xan_ur_permease; cl00967 536230006789 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 536230006790 active site 536230006791 yybP-ykoY leader 536230006792 Predicted membrane protein [Function unknown]; Region: COG2119 536230006793 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 536230006794 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 536230006795 aminopeptidase N; Provisional; Region: pepN; PRK14015 536230006796 Peptidase family M1; Region: Peptidase_M1; pfam01433 536230006797 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 536230006798 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 catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 536230006799 THF binding site; other site 536230006800 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 536230006801 substrate binding site; other site 536230006802 THF binding site; other site 536230006803 zinc-binding site; other site 536230006804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230006805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230006806 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 536230006807 putative dimerization interface; other site 536230006808 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7...; Region: FBPase; cd00354 536230006809 AMP binding site; other site 536230006810 metal-binding site 536230006811 active site 536230006812 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 536230006813 catalytic residues; other site 536230006814 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 536230006815 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 536230006816 N-terminal plug; other site 536230006817 ligand-binding site; other site 536230006818 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 536230006819 chorismate mutase; Provisional; Region: PRK09269 536230006820 Chorismate mutase type II; Region: CM_2; cl00693 536230006821 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 536230006822 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 536230006823 active site 536230006824 substrate binding site; other site 536230006825 catalytic site; other site 536230006826 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 536230006827 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 536230006828 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 536230006829 DNA binding site 536230006830 RNA-binding motif; other site 536230006831 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230006832 trimer interface; other site 536230006833 eyelet of channel; other site 536230006834 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 536230006835 domain; Region: GreA_GreB_N; pfam03449 536230006836 C-term; Region: GreA_GreB; pfam01272 536230006837 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 536230006838 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 536230006839 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536230006840 synthetase active site; other site 536230006841 NTP binding site; other site 536230006842 metal-binding site 536230006843 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named...; Region: TGS_RelA_SpoT; cd01668 536230006844 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 536230006845 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl00765 536230006846 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 536230006847 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 536230006848 catalytic site; other site 536230006849 G-X2-G-X-G-K; other site 536230006850 hypothetical protein; Provisional; Region: PRK11820 536230006851 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 536230006852 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 536230006853 ribonuclease PH; Reviewed; Region: rph; PRK00173 536230006854 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 536230006855 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 536230006856 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A Ham1...; Region: HAM1; cd00515 536230006857 active site 536230006858 dimerization interface; other site 536230006859 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 536230006860 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 536230006861 FeS/SAM binding site; other site 536230006862 HemN C-terminal region; Region: HemN_C; pfam06969 536230006863 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 536230006864 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 536230006865 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230006866 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230006867 putative substrate translocation pore; other site 536230006868 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 536230006869 putative active site; other site 536230006870 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 536230006871 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 536230006872 putative ion selectivity filter; other site 536230006873 putative pore gating glutamate residue; other site 536230006874 putative H+/Cl- coupling transport residue; other site 536230006875 Septum formation topological specificity factor MinE; Region: MinE; cl00538 536230006876 cell division inhibitor MinD; Provisional; Region: PRK10818 536230006877 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a...; Region: MinD; cd02036 536230006878 Switch I; other site 536230006879 Switch II; other site 536230006880 septum formation inhibitor; Reviewed; Region: PRK01973 536230006881 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 536230006882 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 536230006883 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230006884 seryl-tRNA synthetase; Provisional; Region: PRK05431 536230006885 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 536230006886 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 536230006887 dimer interface; other site 536230006888 active site 536230006889 motif 1; other site 536230006890 motif 2; other site 536230006891 motif 3; other site 536230006892 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 536230006893 recombination factor protein RarA; Reviewed; Region: PRK13342 536230006894 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230006895 Walker A motif; other site 536230006896 ATP binding site; other site 536230006897 Walker B motif; other site 536230006898 arginine finger; other site 536230006899 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 536230006900 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 536230006901 DNA translocase FtsK; Provisional; Region: PRK10263 536230006902 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230006903 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 536230006904 thioredoxin reductase; Provisional; Region: PRK10262 536230006905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230006906 Smr domain; Region: Smr; cl02619 536230006907 Predicted membrane protein [Function unknown]; Region: COG2860 536230006908 UPF0126 domain; Region: UPF0126; pfam03458 536230006909 UPF0126 domain; Region: UPF0126; pfam03458 536230006910 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 536230006911 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 536230006912 Walker A/P-loop; other site 536230006913 ATP binding site; other site 536230006914 Q-loop/lid; other site 536230006915 ABC transporter signature motif; other site 536230006916 Walker B; other site 536230006917 D-loop; other site 536230006918 H-loop/switch region; other site 536230006919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230006920 dimer interface; other site 536230006921 conserved gate region; other site 536230006922 putative PBP binding loops; other site 536230006923 ABC-ATPase subunit interface; other site 536230006924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230006925 dimer interface; other site 536230006926 conserved gate region; other site 536230006927 putative PBP binding loops; other site 536230006928 ABC-ATPase subunit interface; other site 536230006929 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536230006930 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 536230006931 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 536230006932 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 536230006933 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 536230006934 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 536230006935 putative active site; other site 536230006936 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 536230006937 ROK family; Region: ROK; cl09121 536230006938 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 536230006939 putative active site; other site 536230006940 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230006941 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230006942 substrate binding pocket; other site 536230006943 membrane-bound complex binding site; other site 536230006944 hinge residues; other site 536230006945 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230006946 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230006947 dimer interface; other site 536230006948 conserved gate region; other site 536230006949 putative PBP binding loops; other site 536230006950 ABC-ATPase subunit interface; other site 536230006951 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536230006952 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 536230006953 Walker A/P-loop; other site 536230006954 ATP binding site; other site 536230006955 Q-loop/lid; other site 536230006956 ABC transporter signature motif; other site 536230006957 Walker B; other site 536230006958 D-loop; other site 536230006959 H-loop/switch region; other site 536230006960 1-aminocyclopropane-1-carboxylate deaminase; Provisional; Region: PRK14045 536230006961 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)...; Region: Trp-synth-beta_II; cl00342 536230006962 pyridoxal 5'-phosphate binding pocket; other site 536230006963 catalytic residue; other site 536230006964 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 536230006965 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230006966 putative substrate translocation pore; other site 536230006967 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 536230006968 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 536230006969 inhibitor-cofactor binding pocket; inhibition site 536230006970 pyridoxal 5'-phosphate binding site; other site 536230006971 catalytic residue; other site 536230006972 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 536230006973 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 536230006974 catalytic motif; other site 536230006975 Zn binding site; other site 536230006976 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 536230006977 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 536230006978 Lumazine binding domain; Region: Lum_binding; pfam00677 536230006979 Lumazine binding domain; Region: Lum_binding; pfam00677 536230006980 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 536230006981 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 536230006982 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 536230006983 dimerization interface; other site 536230006984 active site 536230006985 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 536230006986 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 536230006987 putative RNA binding site; other site 536230006988 aspartate aminotransferase; Provisional; Region: PRK06108 536230006989 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 536230006990 pyridoxal 5'-phosphate binding site; other site 536230006991 homodimer interface; other site 536230006992 catalytic residue; other site 536230006993 murein transglycosylase C; Provisional; Region: mltC; PRK11671 536230006994 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 536230006995 N-acetyl-D-glucosamine binding site; other site 536230006996 catalytic residue; other site 536230006997 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 536230006998 LysE type translocator; Region: LysE; cl00565 536230006999 serine racemase; Region: PLN02970 536230007000 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 536230007001 tetramer interface; other site 536230007002 pyridoxal 5'-phosphate binding site; other site 536230007003 catalytic residue; other site 536230007004 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 536230007005 YGGT family; Region: YGGT; cl00508 536230007006 YGGT family; Region: YGGT; cl00508 536230007007 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 536230007008 CrcB-like protein; Region: CRCB; cl09114 536230007009 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 536230007010 active site 536230007011 catalytic triad; other site 536230007012 calcium binding site; other site 536230007013 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 536230007014 S-adenosylmethionine binding site; other site 536230007015 potential frameshift: common BLAST hit: gi|126439857|ref|YP_001060048.1| NAD-dependent deacetylase 536230007016 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+...; Region: SIR2; cl00195 536230007017 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 536230007018 non-specific DNA binding site; other site 536230007019 salt bridge; other site 536230007020 sequence-specific DNA binding site; other site 536230007021 Domain of unknown function (DUF955); Region: DUF955; cl01076 536230007022 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 536230007023 S-adenosylmethionine binding site; other site 536230007024 Bacitracin resistance protein BacA; Region: BacA; cl00858 536230007025 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 536230007026 Uncharacterized protein family (UPF0153); Region: UPF0153; cl00497 536230007027 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 536230007028 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 536230007029 FeS/SAM binding site; other site 536230007030 HemN C-terminal region; Region: HemN_C; pfam06969 536230007031 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 536230007032 S-adenosylmethionine binding site; other site 536230007033 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 536230007034 active site residue 536230007035 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 536230007036 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 536230007037 inhibitor-cofactor binding pocket; inhibition site 536230007038 pyridoxal 5'-phosphate binding site; other site 536230007039 catalytic residue; other site 536230007040 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230007041 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 536230007042 putative ligand binding site; other site 536230007043 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 536230007044 TM-ABC transporter signature motif; other site 536230007045 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 536230007046 TM-ABC transporter signature motif; other site 536230007047 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 536230007048 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 536230007049 Walker A/P-loop; other site 536230007050 ATP binding site; other site 536230007051 Q-loop/lid; other site 536230007052 ABC transporter signature motif; other site 536230007053 Walker B; other site 536230007054 D-loop; other site 536230007055 H-loop/switch region; other site 536230007056 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 536230007057 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 536230007058 Walker A/P-loop; other site 536230007059 ATP binding site; other site 536230007060 Q-loop/lid; other site 536230007061 ABC transporter signature motif; other site 536230007062 Walker B; other site 536230007063 D-loop; other site 536230007064 H-loop/switch region; other site 536230007065 UreD urease accessory protein; Region: UreD; cl00530 536230007066 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 536230007067 alpha-gamma subunit interface; other site 536230007068 beta-gamma subunit interface; other site 536230007069 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_beta; cd00407 536230007070 gamma-beta subunit interface; other site 536230007071 alpha-beta subunit interface; other site 536230007072 urease subunit alpha; Reviewed; Region: ureC; PRK13207 536230007073 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 536230007074 subunit interactions; other site 536230007075 active site 536230007076 flap region; other site 536230007077 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 536230007078 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-...; Region: UreE; cd00571 536230007079 dimer interface; other site 536230007080 catalytic residues; other site 536230007081 UreF; Region: UreF; cl00531 536230007082 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230007083 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 536230007084 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 536230007085 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 536230007086 Protein of unknown function (DUF2843); Region: DUF2843; pfam11004 536230007087 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230007088 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 536230007089 putative active site; other site 536230007090 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 536230007091 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 536230007092 active site 536230007093 substrate binding site; other site 536230007094 metal-binding site 536230007095 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 536230007096 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 536230007097 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 536230007098 active site 536230007099 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 536230007100 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230007101 putative ADP-binding pocket; other site 536230007102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007103 UDP-glucose 4-epimerase; Region: PLN02240 536230007104 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases...; Region: GT_MraY_like; cd06912 536230007105 Mg++ binding site; other site 536230007106 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 536230007107 putative catalytic motif; other site 536230007108 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 536230007109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007110 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 536230007111 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine...; Region: GT_WbpL_WbcO_like; cd06854 536230007112 Mg++ binding site; other site 536230007113 putative catalytic motif; other site 536230007114 putative substrate binding site; other site 536230007115 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536230007116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007117 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 536230007118 active site 536230007119 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 536230007120 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 536230007121 Probable Catalytic site; other site 536230007122 metal-binding site 536230007123 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 536230007124 active site 536230007125 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230007126 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 536230007127 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 536230007128 active site 536230007129 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 536230007130 Probable Catalytic site; other site 536230007131 metal-binding site 536230007132 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536230007133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007134 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 536230007135 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536230007136 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 536230007137 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 536230007138 Walker A/P-loop; other site 536230007139 ATP binding site; other site 536230007140 Q-loop/lid; other site 536230007141 ABC transporter signature motif; other site 536230007142 Walker B; other site 536230007143 D-loop; other site 536230007144 H-loop/switch region; other site 536230007145 ABC-2 type transporter; Region: ABC2_membrane; cl11417 536230007146 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 536230007147 Cupin domain; Region: Cupin_2; cl09118 536230007148 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 536230007149 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 536230007150 substrate binding site; other site 536230007151 tetramer interface; other site 536230007152 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 536230007153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007154 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 536230007155 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 536230007156 active site 536230007157 metal-binding site 536230007158 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536230007159 putative acyl-acceptor binding pocket; other site 536230007160 dihydroorotase; Provisional; Region: PRK07627 536230007161 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 536230007162 active site 536230007163 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 536230007164 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536230007165 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536230007166 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230007167 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 536230007168 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 536230007169 Rubredoxin [Energy production and conversion]; Region: COG1773 536230007170 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They...; Region: rubredoxin; cd00730 536230007171 iron binding site; other site 536230007172 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 536230007173 dimer interface; other site 536230007174 substrate binding site; other site 536230007175 ATP binding site; other site 536230007176 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 536230007177 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 536230007178 ring oligomerisation interface; other site 536230007179 ATP/Mg binding site; other site 536230007180 stacking interactions; other site 536230007181 hinge regions; other site 536230007182 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 536230007183 oligomerisation interface; other site 536230007184 mobile loop; other site 536230007185 roof hairpin; other site 536230007186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007187 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 536230007188 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 536230007189 putative NAD(P) binding site; other site 536230007190 Surface antigen; Region: Surface_Ag_2; cl01155 536230007191 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230007192 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230007193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007194 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230007195 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 536230007196 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 536230007197 non-specific DNA binding site; other site 536230007198 salt bridge; other site 536230007199 sequence-specific DNA binding site; other site 536230007200 LysE type translocator; Region: LysE; cl00565 536230007201 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 536230007202 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 536230007203 putative active site; other site 536230007204 catalytic site; other site 536230007205 putative metal binding site; other site 536230007206 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230007207 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007208 putative substrate translocation pore; other site 536230007209 Sulfite exporter TauE/SafE; Region: TauE; cl00498 536230007210 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 536230007211 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 536230007212 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 536230007213 Putative phospholipid-binding domain; Region: BON; cl02771 536230007214 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 536230007215 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 536230007216 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1,2-; Region: DsbA_HCCA_Iso; cd03022 536230007217 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 536230007218 putative catalytic residue; other site 536230007219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230007220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007221 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 536230007222 dimerization interface; other site 536230007223 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 536230007224 dimer interface; other site 536230007225 putative PBP binding regions; other site 536230007226 ABC-ATPase subunit interface; other site 536230007227 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 536230007228 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 536230007229 putative ligand binding residues; other site 536230007230 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536230007231 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536230007232 Walker A/P-loop; other site 536230007233 ATP binding site; other site 536230007234 Q-loop/lid; other site 536230007235 ABC transporter signature motif; other site 536230007236 Walker B; other site 536230007237 D-loop; other site 536230007238 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 536230007239 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 536230007240 N-terminal plug; other site 536230007241 ligand-binding site; other site 536230007242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 536230007243 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 536230007244 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 536230007245 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 536230007246 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536230007247 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 536230007248 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536230007249 FAD binding domain; Region: FAD_binding_4; cl10516 536230007250 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 536230007251 major facilitator superfamily transporter; Provisional; Region: PRK05122 536230007252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007253 putative substrate translocation pore; other site 536230007254 EamA-like transporter family; Region: EamA; cl01037 536230007255 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536230007256 EamA-like transporter family; Region: EamA; cl01037 536230007257 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230007258 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 536230007259 pyridoxal 5'-phosphate binding pocket; other site 536230007260 catalytic residue; other site 536230007261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230007262 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007263 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 536230007264 putative effector binding pocket; other site 536230007265 dimerization interface; other site 536230007266 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 536230007267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007268 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD...; Region: BluB; cd02145 536230007269 putative FMN binding site; other site 536230007270 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007271 putative substrate translocation pore; other site 536230007272 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007273 putative substrate translocation pore; other site 536230007274 fumarylacetoacetase; Region: PLN02856 536230007275 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 536230007276 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 536230007277 homogentisate 1,2-dioxygenase; Region: HgmA; cl10473 536230007278 benzoate transport; Region: 2A0115; TIGR00895 536230007279 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007280 putative substrate translocation pore; other site 536230007281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007282 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 536230007283 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 536230007284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007285 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230007286 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 536230007287 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 536230007288 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230007289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007290 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230007291 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 536230007292 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230007293 FAD binding site; other site 536230007294 substrate binding pocket; other site 536230007295 catalytic base; other site 536230007296 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 536230007297 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 536230007298 dimer interface; other site 536230007299 decamer (pentamer of dimers) interface; other site 536230007300 catalytic triad; other site 536230007301 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 536230007302 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 536230007303 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 536230007304 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 536230007305 Type II transport protein GspH; Region: GspH; pfam12019 536230007306 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 536230007307 ATP cone domain; Region: ATP-cone; pfam03477 536230007308 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of...; Region: SHMT; cd00378 536230007309 dimer interface; other site 536230007310 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 536230007311 glycine-pyridoxal phosphate binding site; other site 536230007312 active site 536230007313 folate binding site; other site 536230007314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007315 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 536230007316 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 536230007317 active site 536230007318 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 536230007319 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 536230007320 Gram-negative bacterial tonB protein; Region: TonB; cl10048 536230007321 translocation protein TolB; Provisional; Region: tolB; PRK02889 536230007322 TolB amino-terminal domain; Region: TolB_N; pfam04052 536230007323 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536230007324 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536230007325 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536230007326 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 536230007327 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230007328 ligand binding site; other site 536230007329 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 536230007330 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 536230007331 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 536230007332 active site 536230007333 tetramer interface; other site 536230007334 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 536230007335 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-...; Region: SIS_Kpsf; cd05014 536230007336 putative active site; other site 536230007337 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 536230007338 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230007339 NeuB family; Region: NeuB; cl00496 536230007340 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536230007341 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 536230007342 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230007343 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 536230007344 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of L...; Region: LbH_SAT; cd03354 536230007345 trimer interface; other site 536230007346 active site 536230007347 substrate binding site; other site 536230007348 CoA binding site; other site 536230007349 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 536230007350 tyrosine kinase; Provisional; Region: PRK11519 536230007351 Chain length determinant protein; Region: Wzz; cl01623 536230007352 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 536230007353 Nucleotide binding site; other site 536230007354 Low molecular weight phosphatase family; Region: LMWPc; cd00115 536230007355 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 536230007356 active site 536230007357 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536230007358 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 536230007359 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 536230007360 Bacterial sugar transferase; Region: Bac_transf; cl00939 536230007361 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230007362 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 536230007363 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230007364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230007365 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 536230007366 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 536230007367 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 536230007368 pyridoxal 5'-phosphate binding pocket; other site 536230007369 catalytic residue; other site 536230007370 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 536230007371 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 536230007372 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 536230007373 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 536230007374 active site 536230007375 Acyl transferase domain; Region: Acyl_transf_1; cl08282 536230007376 PKS_DH; Region: PKS_DH; smart00826 536230007377 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230007378 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 536230007379 Enoylreductase; Region: PKS_ER; smart00829 536230007380 NAD(P) binding site; other site 536230007381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007382 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230007383 Sulfatase; Region: Sulfatase; cl10460 536230007384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007385 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 536230007386 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 536230007387 active site 536230007388 motif I; other site 536230007389 motif II; other site 536230007390 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 536230007391 Substrate binding site; other site 536230007392 Mg++ binding site; other site 536230007393 metal-binding site 536230007394 Mg++ binding site; other site 536230007395 metal-binding site 536230007396 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 536230007397 dimer interface; other site 536230007398 active site 536230007399 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 536230007400 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 536230007401 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 536230007402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007403 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 536230007404 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 536230007405 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230007406 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 536230007407 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 536230007408 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536230007409 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 536230007410 Walker A/P-loop; other site 536230007411 ATP binding site; other site 536230007412 Q-loop/lid; other site 536230007413 ABC transporter signature motif; other site 536230007414 Walker B; other site 536230007415 D-loop; other site 536230007416 H-loop/switch region; other site 536230007417 ABC-2 type transporter; Region: ABC2_membrane; cl11417 536230007418 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 536230007419 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 536230007420 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536230007421 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 536230007422 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 536230007423 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 536230007424 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 536230007425 Substrate binding site; other site 536230007426 Cupin domain; Region: Cupin_2; cl09118 536230007427 conserved hypothetical protein TIGR03442; Region: TIGR03442 536230007428 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 536230007429 putative active site; other site 536230007430 putative dimer interface; other site 536230007431 mechanosensitive channel MscS; Provisional; Region: PRK10334 536230007432 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230007433 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 536230007434 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 536230007435 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 536230007436 ATP binding site; other site 536230007437 Mg2+ binding site; other site 536230007438 G-X-G motif; other site 536230007439 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 536230007440 ATP binding site; other site 536230007441 MutL C terminal dimerization domain; Region: MutL_C; cl07336 536230007442 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 536230007443 IPP transferase; Region: IPPT; cl00403 536230007444 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 536230007445 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 536230007446 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine...; Region: PurM; cd02196 536230007447 dimerization interface; other site 536230007448 putative ATP binding site; other site 536230007449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230007450 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230007451 poly(A) polymerase; Region: pcnB; TIGR01942 536230007452 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 536230007453 active site 536230007454 NTP binding site; other site 536230007455 metal binding triad; metal-binding site 536230007456 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 536230007457 catalytic center binding site; other site 536230007458 ATP binding site; other site 536230007459 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 536230007460 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...; Region: dNK; cd01673 536230007461 Substrate-binding site; other site 536230007462 Substrate specificity; other site 536230007463 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 536230007464 oligomerization interface; other site 536230007465 active site 536230007466 metal-binding site 536230007467 chorismate binding enzyme; Region: Chorismate_bind; cl10555 536230007468 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 536230007469 homodimer interface; other site 536230007470 substrate-cofactor binding pocket; other site 536230007471 Aminotransferase class IV; Region: Aminotran_4; pfam01063 536230007472 pyridoxal 5'-phosphate binding site; other site 536230007473 catalytic residue; other site 536230007474 chaperone protein DnaJ; Provisional; Region: PRK10767 536230007475 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 536230007476 HSP70 interaction site; other site 536230007477 DnaJ C terminal region; Region: DnaJ_C; pfam01556 536230007478 DnaJ C terminal region; Region: DnaJ_C; pfam01556 536230007479 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 536230007480 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 536230007481 dimer interface; other site 536230007482 hsp70 (ATPase domain) interactions; other site 536230007483 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 536230007484 RNA binding surface; other site 536230007485 ferrochelatase; Reviewed; Region: hemH; PRK00035 536230007486 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 536230007487 C-terminal domain interface; other site 536230007488 active site 536230007489 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 536230007490 active site 536230007491 N-terminal domain interface; other site 536230007492 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 536230007493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007494 HrcA protein C terminal domain; Region: HrcA; pfam01628 536230007495 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 536230007496 recombination and repair protein; Provisional; Region: PRK10869 536230007497 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 536230007498 Walker A/P-loop; other site 536230007499 ATP binding site; other site 536230007500 Q-loop/lid; other site 536230007501 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 536230007502 ABC transporter signature motif; other site 536230007503 Walker B; other site 536230007504 D-loop; other site 536230007505 H-loop/switch region; other site 536230007506 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 536230007507 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536230007508 metal binding triad; other site 536230007509 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536230007510 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536230007511 metal binding triad; other site 536230007512 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536230007513 conserved hypothetical protein TIGR02099; Region: TIGR02099 536230007514 hypothetical protein; Provisional; Region: PRK10899 536230007515 Predicted amidohydrolase [General function prediction only]; Region: COG0388 536230007516 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 536230007517 putative active site; other site 536230007518 catalytic triad; other site 536230007519 dimer interface; other site 536230007520 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 536230007521 NeuB family; Region: NeuB; cl00496 536230007522 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536230007523 nitric oxide dioxygenase; Provisional; Region: PRK13289 536230007524 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 536230007525 heme-binding site; other site 536230007526 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 536230007527 FAD binding pocket; other site 536230007528 FAD binding motif; other site 536230007529 phosphate binding motif; other site 536230007530 beta-alpha-beta structure motif; other site 536230007531 NAD binding pocket; other site 536230007532 Heme binding pocket; other site 536230007533 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 536230007534 FAD binding domain; Region: FAD_binding_4; cl10516 536230007535 D-lactate dehydrogenase; Region: PLN02805 536230007536 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 536230007537 FAD binding domain; Region: FAD_binding_4; cl10516 536230007538 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 536230007539 FAD binding domain; Region: FAD_binding_4; cl10516 536230007540 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 536230007541 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl00255 536230007542 Cysteine-rich domain; Region: CCG; pfam02754 536230007543 Cysteine-rich domain; Region: CCG; pfam02754 536230007544 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 536230007545 pyridoxal 5'-phosphate (PLP) binding site; other site 536230007546 catalytic residue; other site 536230007547 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 536230007548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007549 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230007550 dimer interface; other site 536230007551 conserved gate region; other site 536230007552 ABC-ATPase subunit interface; other site 536230007553 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 536230007554 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 536230007555 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 536230007556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230007557 Walker A/P-loop; other site 536230007558 ATP binding site; other site 536230007559 Q-loop/lid; other site 536230007560 ABC transporter signature motif; other site 536230007561 Walker B; other site 536230007562 D-loop; other site 536230007563 H-loop/switch region; other site 536230007564 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 536230007565 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 536230007566 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 536230007567 active site 536230007568 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 536230007569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230007570 Walker A/P-loop; other site 536230007571 ATP binding site; other site 536230007572 Q-loop/lid; other site 536230007573 ABC transporter signature motif; other site 536230007574 Walker B; other site 536230007575 D-loop; other site 536230007576 H-loop/switch region; other site 536230007577 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 536230007578 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 536230007579 Walker A/P-loop; other site 536230007580 ATP binding site; other site 536230007581 Q-loop/lid; other site 536230007582 ABC transporter signature motif; other site 536230007583 Walker B; other site 536230007584 D-loop; other site 536230007585 H-loop/switch region; other site 536230007586 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230007587 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 536230007588 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 536230007589 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 536230007590 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 536230007591 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 536230007592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230007593 DNA binding site 536230007594 UTRA domain; Region: UTRA; cl06649 536230007595 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 536230007596 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 536230007597 Guanylate kinase; Region: Guanylate_kin; cl12021 536230007598 UbiA prenyltransferase family; Region: UbiA; cl00337 536230007599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007600 Ferritin-like domain; Region: Ferritin; pfam00210 536230007601 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 536230007602 dimerization interface; other site 536230007603 DPS ferroxidase diiron center; other site 536230007604 ion pore; other site 536230007605 Catalase (peroxidase I) [Inorganic ion transport and metabolism]; Region: KatG; COG0376 536230007606 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 536230007607 dimer interface; other site 536230007608 active site 536230007609 heme binding site; other site 536230007610 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 536230007611 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 536230007612 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007613 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 536230007614 dimerization interface; other site 536230007615 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 536230007616 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-...; Region: RecG_wedge_OBF; cd04488 536230007617 generic binding surface II; other site 536230007618 ssDNA binding site; other site 536230007619 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 536230007620 ATP binding site; other site 536230007621 putative Mg++ binding site; other site 536230007622 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 536230007623 nucleotide binding region; other site 536230007624 ATP-binding site; other site 536230007625 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 536230007626 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 536230007627 Preprotein translocase subunit; Region: YajC; cl00806 536230007628 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 536230007629 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 536230007630 Protein export membrane protein; Region: SecD_SecF; cl14618 536230007631 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 536230007632 Protein export membrane protein; Region: SecD_SecF; cl14618 536230007633 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007634 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230007635 putative substrate translocation pore; other site 536230007636 YceI-like domain; Region: YceI; cl01001 536230007637 YceI-like domain; Region: YceI; cl01001 536230007638 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 536230007639 Paraquat-inducible protein A; Region: PqiA; pfam04403 536230007640 Paraquat-inducible protein A; Region: PqiA; pfam04403 536230007641 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 536230007642 mce related protein; Region: MCE; pfam02470 536230007643 mce related protein; Region: MCE; pfam02470 536230007644 Protein of unknown function (DUF330); Region: DUF330; cl01135 536230007645 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 536230007646 Site-specific recombinase; Region: SpecificRecomb; pfam10136 536230007647 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 536230007648 THUMP domain; Region: THUMP; cl12076 536230007649 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230007650 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 536230007651 Predicted transcriptional regulator [Transcription]; Region: COG2378 536230007652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007653 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 536230007654 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 536230007655 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 536230007656 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 536230007657 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...; Region: Nudix_Hydrolase_2; cd03675 536230007658 nudix motif; other site 536230007659 tRNA-specific 2-thiouridylase MnmA; Reviewed; Region: mnmA; PRK00143 536230007660 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 536230007661 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 536230007662 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant...; Region: GltS_FMN; cd02808 536230007663 active site 536230007664 FMN binding site; other site 536230007665 substrate binding site; other site 536230007666 3Fe-4S cluster binding site; other site 536230007667 putative glutathione S-transferase; Provisional; Region: PRK10357 536230007668 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 536230007669 putative C-terminal domain interface; other site 536230007670 putative GSH binding site (G-site); other site 536230007671 putative dimer interface; other site 536230007672 GST_C family, unknown subfamily 6; 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_C_6; cd03205 536230007673 putative N-terminal domain interface; other site 536230007674 putative dimer interface; other site 536230007675 putative substrate binding pocket (H-site); other site 536230007676 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 536230007677 proline aminopeptidase P II; Provisional; Region: PRK10879 536230007678 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...; Region: Prolidase; cd01087 536230007679 active site 536230007680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007681 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 536230007682 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 536230007683 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 536230007684 FMN binding site; other site 536230007685 active site 536230007686 catalytic residues; other site 536230007687 substrate binding site; other site 536230007688 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 536230007689 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 536230007690 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 536230007691 purine monophosphate binding site; other site 536230007692 dimer interface; other site 536230007693 putative catalytic residues; other site 536230007694 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 536230007695 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 536230007696 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 536230007697 active site 536230007698 putative DNA-binding cleft; other site 536230007699 dimer interface; other site 536230007700 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 536230007701 RuvA N terminal domain; Region: RuvA_N; pfam01330 536230007702 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 536230007703 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 536230007704 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230007705 Walker A motif; other site 536230007706 ATP binding site; other site 536230007707 Walker B motif; other site 536230007708 arginine finger; other site 536230007709 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 536230007710 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 536230007711 Putative ParB-like nuclease; Region: ParBc_2; cl01772 536230007712 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 536230007713 catalytic core; other site 536230007714 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 536230007715 putative active site; other site 536230007716 dimerization interface; other site 536230007717 putative tRNAtyr binding site; other site 536230007718 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 536230007719 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 536230007720 active site 536230007721 HIGH motif; other site 536230007722 dimer interface; other site 536230007723 KMSKS motif; other site 536230007724 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 536230007725 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 536230007726 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 536230007727 glutathione S-transferase; Provisional; Region: PRK13972 536230007728 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_N_Ure2p_like; cd03048 536230007729 C-terminal domain interface; other site 536230007730 GSH binding site (G-site); other site 536230007731 dimer interface; other site 536230007732 GST_C family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_C_Ure2p_like; cd03178 536230007733 dimer interface; other site 536230007734 N-terminal domain interface; other site 536230007735 putative substrate binding pocket (H-site); other site 536230007736 glutathione S-transferase; Provisional; Region: PRK13972 536230007737 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_N_Ure2p_like; cd03048 536230007738 C-terminal domain interface; other site 536230007739 GSH binding site (G-site); other site 536230007740 dimer interface; other site 536230007741 GST_C family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_C_Ure2p_like; cd03178 536230007742 dimer interface; other site 536230007743 N-terminal domain interface; other site 536230007744 putative substrate binding pocket (H-site); other site 536230007745 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230007746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230007747 Transposase; Region: Transposase_12; pfam01610 536230007748 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 536230007749 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 536230007750 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 536230007751 23S rRNA interface; other site 536230007752 L3 interface; other site 536230007753 OsmC-like protein; Region: OsmC; cl00767 536230007754 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 536230007755 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 536230007756 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 536230007757 active site 536230007758 substrate binding pocket; other site 536230007759 dimer interface; other site 536230007760 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 536230007761 putative active site; other site 536230007762 putative dimer interface; other site 536230007763 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 536230007764 putative dimer interface; other site 536230007765 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 536230007766 putative dimer interface; other site 536230007767 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 536230007768 oligomerisation interface; other site 536230007769 mobile loop; other site 536230007770 roof hairpin; other site 536230007771 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 536230007772 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 536230007773 ring oligomerisation interface; other site 536230007774 ATP/Mg binding site; other site 536230007775 stacking interactions; other site 536230007776 hinge regions; other site 536230007777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230007778 Transposase; Region: Transposase_12; pfam01610 536230007779 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536230007780 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 536230007781 Walker A/P-loop; other site 536230007782 ATP binding site; other site 536230007783 Q-loop/lid; other site 536230007784 ABC transporter signature motif; other site 536230007785 Walker B; other site 536230007786 D-loop; other site 536230007787 H-loop/switch region; other site 536230007788 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230007789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230007790 dimer interface; other site 536230007791 conserved gate region; other site 536230007792 putative PBP binding loops; other site 536230007793 ABC-ATPase subunit interface; other site 536230007794 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230007795 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230007796 dimer interface; other site 536230007797 conserved gate region; other site 536230007798 putative PBP binding loops; other site 536230007799 ABC-ATPase subunit interface; other site 536230007800 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230007801 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230007802 substrate binding pocket; other site 536230007803 membrane-bound complex binding site; other site 536230007804 hinge residues; other site 536230007805 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 536230007806 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 536230007807 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 536230007808 NAD(P) binding site; other site 536230007809 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230007810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007811 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 536230007812 dimerization interface; other site 536230007813 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 536230007814 adenylosuccinate lyase; Provisional; Region: PRK09285 536230007815 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 536230007816 tetramer interface; other site 536230007817 active site 536230007818 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 536230007819 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 536230007820 ATP-binding site; other site 536230007821 Gluconate-6-phosphate binding site; other site 536230007822 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 536230007823 gluconate transporter; Region: gntP; TIGR00791 536230007824 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 536230007825 KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best...; Region: KDPG_aldolase; cd00452 536230007826 active site 536230007827 intersubunit interface; other site 536230007828 catalytic residue; other site 536230007829 Dehydratase family; Region: ILVD_EDD; cl00340 536230007830 6-phosphogluconate dehydratase; Region: edd; TIGR01196 536230007831 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 536230007832 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 536230007833 putative active site; other site 536230007834 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 536230007835 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 536230007836 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 536230007837 putative catalytic cysteine; other site 536230007838 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 536230007839 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 536230007840 Rare lipoprotein B family; Region: RplB; cl01125 536230007841 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 536230007842 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 536230007843 HIGH motif; other site 536230007844 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230007845 KMSKS motif; other site 536230007846 active site 536230007847 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 536230007848 tRNA binding surface; other site 536230007849 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 536230007850 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 536230007851 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 536230007852 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 536230007853 dihydrodipicolinate reductase; Provisional; Region: PRK00048 536230007854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007855 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 536230007856 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 536230007857 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536230007858 metal binding site 2; metal-binding site 536230007859 putative DNA binding helix; other site 536230007860 metal binding site 1; metal-binding site 536230007861 dimer interface; other site 536230007862 structural Zn2+ binding site; other site 536230007863 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 536230007864 allantoicase; Provisional; Region: PRK13257 536230007865 Allantoicase repeat; Region: Allantoicase; pfam03561 536230007866 Allantoicase repeat; Region: Allantoicase; pfam03561 536230007867 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 536230007868 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230007869 DNA binding site 536230007870 FCD domain; Region: FCD; cl11656 536230007871 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 536230007872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007873 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 536230007874 dimerization interface; other site 536230007875 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 536230007876 active site clefts 536230007877 zinc binding site; other site 536230007878 dimer interface; other site 536230007879 cyanate hydratase; Validated; Region: PRK02866 536230007880 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 536230007881 oligomer interface; other site 536230007882 active site 536230007883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230007884 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 536230007885 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 536230007886 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 536230007887 transketolase; Reviewed; Region: PRK05899 536230007888 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 536230007889 TPP-binding site; other site 536230007890 dimer interface; other site 536230007891 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 536230007892 PYR/PP interface; other site 536230007893 dimer interface; other site 536230007894 TPP binding site; other site 536230007895 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536230007896 spermidine synthase; Provisional; Region: PRK00811 536230007897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230007898 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 536230007899 putative dimer interface; other site 536230007900 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 536230007901 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 536230007902 putative RNAase interaction site; other site 536230007903 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a...; Region: RNase_Sa; cd00607 536230007904 active site 536230007905 barstar interaction site; other site 536230007906 malic enzyme; Reviewed; Region: PRK12862 536230007907 Malic enzyme, N-terminal domain; Region: malic; pfam00390 536230007908 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 536230007909 putative NAD(P) binding site; other site 536230007910 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 536230007911 thiamine monophosphate kinase; Provisional; Region: PRK05731 536230007912 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 536230007913 ATP binding site; other site 536230007914 dimerization interface; other site 536230007915 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 536230007916 tetramer interfaces; other site 536230007917 binuclear metal-binding site; other site 536230007918 Competence-damaged protein; Region: CinA; cl00666 536230007919 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 536230007920 active site 536230007921 dimer interface; other site 536230007922 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 536230007923 Aldose 1-epimerase; Region: Aldose_epim; cl00476 536230007924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007925 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 536230007926 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 536230007927 TM-ABC transporter signature motif; other site 536230007928 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 536230007929 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 536230007930 Walker A/P-loop; other site 536230007931 ATP binding site; other site 536230007932 Q-loop/lid; other site 536230007933 ABC transporter signature motif; other site 536230007934 Walker B; other site 536230007935 D-loop; other site 536230007936 H-loop/switch region; other site 536230007937 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 536230007938 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 536230007939 family; Region: Peripla_BP_1; pfam00532 536230007940 ligand binding site; other site 536230007941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230007942 KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best...; Region: KDPG_aldolase; cd00452 536230007943 active site 536230007944 intersubunit interface; other site 536230007945 catalytic residue; other site 536230007946 2-keto-3-deoxy-galactonokinase; Region: DGOK; cl01517 536230007947 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230007948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230007949 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230007950 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 536230007951 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 536230007952 Transglycosylase; Region: Transgly; cl07896 536230007953 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 536230007954 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 536230007955 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 536230007956 shikimate binding site; other site 536230007957 NAD(P) binding site; other site 536230007958 RNB domain; Region: RNB; pfam00773 536230007959 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230007960 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 536230007961 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536230007962 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230007963 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230007964 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 536230007965 catalytic residues; other site 536230007966 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 536230007967 active site 536230007968 trimer interface; other site 536230007969 dimer interface; other site 536230007970 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 536230007971 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 536230007972 carboxyltransferase (CT) interaction site; other site 536230007973 biotinylation site; other site 536230007974 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 536230007975 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536230007976 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230007977 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 536230007978 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 536230007979 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230007980 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 536230007981 S-adenosylmethionine binding site; other site 536230007982 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 536230007983 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 536230007984 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 536230007985 dimer interface; other site 536230007986 catalytic triad; other site 536230007987 peroxidatic and resolving cysteines; other site 536230007988 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 536230007989 substrate binding site; other site 536230007990 ATP binding site; other site 536230007991 Rickettsia 17 kDa surface antigen; Region: Rick_17kDa_Anti; cl10470 536230007992 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 536230007993 dimer interface; other site 536230007994 putative radical transfer pathway; other site 536230007995 diiron center; other site 536230007996 tyrosyl radical; other site 536230007997 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 536230007998 ATP cone domain; Region: ATP-cone; pfam03477 536230007999 Class I ribonucleotide reductase; Region: RNR_I; cd01679 536230008000 active site 536230008001 dimer interface; other site 536230008002 catalytic residues; other site 536230008003 effector binding site; other site 536230008004 R2 peptide binding site; other site 536230008005 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 536230008006 amidase catalytic site; other site 536230008007 Zn binding residues; other site 536230008008 substrate binding site; other site 536230008009 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 536230008010 signal recognition particle protein; Provisional; Region: PRK10867 536230008011 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 536230008012 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 536230008013 P loop; other site 536230008014 GTP binding site; other site 536230008015 Signal peptide binding domain; Region: SRP_SPB; pfam02978 536230008016 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230008017 MarC family integral membrane protein; Region: MarC; cl00919 536230008018 prolyl-tRNA synthetase; Provisional; Region: PRK09194 536230008019 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 536230008020 dimer interface; other site 536230008021 motif 1; other site 536230008022 active site 536230008023 motif 2; other site 536230008024 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 single-...; Region: ProRS-INS; cd04334 536230008025 putative deacylase active site; other site 536230008026 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 536230008027 active site 536230008028 motif 3; other site 536230008029 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 536230008030 anticodon binding site; other site 536230008031 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where...; Region: Ap4A_hydrolase_plant_like; cd03671 536230008032 putative active site; other site 536230008033 Ap4A binding site; other site 536230008034 nudix motif; other site 536230008035 putative metal binding site; other site 536230008036 CNP1-like family; Region: CNP1; pfam08750 536230008037 gamma-glutamyl kinase; Provisional; Region: PRK05429 536230008038 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 536230008039 nucleotide binding site; other site 536230008040 homotetrameric interface; other site 536230008041 putative phosphate binding site; other site 536230008042 putative allosteric binding site; other site 536230008043 PUA domain; Region: PUA; cl00607 536230008044 GTPase ObgE; Reviewed; Region: obgE; PRK12298 536230008045 GTP1/OBG; Region: GTP1_OBG; pfam01018 536230008046 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 536230008047 G1 box; other site 536230008048 GTP/Mg2+ binding site; other site 536230008049 Switch I region; other site 536230008050 G2 box; other site 536230008051 G3 box; other site 536230008052 Switch II region; other site 536230008053 G4 box; other site 536230008054 G5 box; other site 536230008055 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 536230008056 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 536230008057 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 536230008058 substrate binding pocket; other site 536230008059 chain length determination region; other site 536230008060 substrate-Mg2+ binding site; other site 536230008061 catalytic residues; other site 536230008062 aspartate-rich region 1; other site 536230008063 active site lid residues 536230008064 aspartate-rich region 2; other site 536230008065 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 536230008066 Domain of unknown function DUF21; Region: DUF21; pfam01595 536230008067 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 536230008068 Transporter associated domain; Region: CorC_HlyC; pfam03471 536230008069 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 536230008070 Walker A motif; other site 536230008071 ATP binding site; other site 536230008072 Walker B motif; other site 536230008073 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 536230008074 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230008075 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230008076 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 536230008077 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 536230008078 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 536230008079 CoA-binding site; other site 536230008080 ATP-binding; other site 536230008081 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 536230008082 Domain of unknown function (DUF329); Region: DUF329; cl01144 536230008083 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 536230008084 active site 536230008085 8-oxo-dGMP binding site; other site 536230008086 nudix motif; other site 536230008087 metal-binding site 536230008088 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 536230008089 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230008090 Walker A motif; other site 536230008091 ATP binding site; other site 536230008092 Walker B motif; other site 536230008093 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group...; Region: OAT; cd02152 536230008094 heterotetramer interface; other site 536230008095 active site pocket 536230008096 cleavage site 536230008097 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 536230008098 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; cl12029 536230008099 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 536230008100 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 536230008101 nucleotide binding region; other site 536230008102 ATP-binding site; other site 536230008103 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 536230008104 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 536230008105 SEC-C motif; Region: SEC-C; cl12132 536230008106 Protein of unknown function (DUF721); Region: DUF721; cl02324 536230008107 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 536230008108 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 536230008109 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 536230008110 catalytic triad; other site 536230008111 dimer interface; other site 536230008112 cell division protein FtsZ; Validated; Region: PRK09330 536230008113 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 536230008114 nucleotide binding site; other site 536230008115 SulA interaction site; other site 536230008116 cell division protein FtsA; Region: ftsA; TIGR01174 536230008117 Cell division protein FtsA; Region: FtsA; cl11496 536230008118 Cell division protein FtsA; Region: FtsA; cl11496 536230008119 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 536230008120 Cell division protein FtsQ; Region: FtsQ; pfam03799 536230008121 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 536230008122 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 536230008123 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 536230008124 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 536230008125 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536230008126 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230008127 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230008128 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 536230008129 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl...; Region: GT1_MurG; cd03785 536230008130 active site 536230008131 homodimer interface; other site 536230008132 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 536230008133 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 536230008134 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230008135 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 536230008136 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 536230008137 Mg++ binding site; other site 536230008138 putative catalytic motif; other site 536230008139 putative substrate binding site; other site 536230008140 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536230008141 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 536230008142 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230008143 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230008144 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 536230008145 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230008146 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230008147 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 536230008148 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 536230008149 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 536230008150 Septum formation initiator; Region: DivIC; cl11433 536230008151 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230008152 cell division protein MraZ; Reviewed; Region: PRK00326 536230008153 MraZ protein; Region: MraZ; pfam02381 536230008154 MraZ protein; Region: MraZ; pfam02381 536230008155 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 536230008156 diiron binding motif; other site 536230008157 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230008158 trimer interface; other site 536230008159 eyelet of channel; other site 536230008160 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 536230008161 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230008162 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 536230008163 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These...; Region: MopB_3; cd02766 536230008164 putative [4Fe-4S] binding site; other site 536230008165 putative molybdopterin cofactor binding site; other site 536230008166 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 536230008167 putative molybdopterin cofactor binding site; other site 536230008168 enoyl-CoA hydratase; Provisional; Region: PRK05980 536230008169 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230008170 substrate binding site; other site 536230008171 oxyanion hole (OAH) forming residues; other site 536230008172 trimer interface; other site 536230008173 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230008174 NAD(P) binding site; other site 536230008175 catalytic residues; other site 536230008176 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 536230008177 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 536230008178 dimer interface; other site 536230008179 active site 536230008180 enoyl-CoA hydratase; Provisional; Region: PRK06142 536230008181 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230008182 substrate binding site; other site 536230008183 oxyanion hole (OAH) forming residues; other site 536230008184 trimer interface; other site 536230008185 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 536230008186 CoenzymeA binding site; other site 536230008187 subunit interaction site; other site 536230008188 PHB binding site; other site 536230008189 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230008190 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 536230008191 MltA specific insert domain; Region: MltA; pfam03562 536230008192 3D domain; Region: 3D; cl01439 536230008193 Protein of unknown function (DUF525); Region: DUF525; cl01119 536230008194 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative...; Region: RPE; cd00429 536230008195 substrate binding site; other site 536230008196 hexamer interface; other site 536230008197 metal-binding site 536230008198 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 536230008199 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 536230008200 motif II; other site 536230008201 anthranilate synthase component I; Provisional; Region: PRK13565 536230008202 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 536230008203 chorismate binding enzyme; Region: Chorismate_bind; cl10555 536230008204 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 536230008205 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 536230008206 glutamine binding; other site 536230008207 catalytic triad; other site 536230008208 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 536230008209 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536230008210 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 536230008211 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 536230008212 active site 536230008213 ribulose/triose binding site; other site 536230008214 phosphate binding site; other site 536230008215 substrate (anthranilate) binding pocket; other site 536230008216 product (indole) binding pocket; other site 536230008217 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 536230008218 putative active site; other site 536230008219 putative metal binding residues; other site 536230008220 signature motif; other site 536230008221 putative triphosphate binding site; other site 536230008222 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 536230008223 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 536230008224 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 536230008225 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 536230008226 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated...; Region: PDZ; cl00117 536230008227 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...; Region: DsbA_DsbC_DsbG; cd03020 536230008228 dimerization domain; other site 536230008229 dimer interface; other site 536230008230 catalytic residues; other site 536230008231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008232 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 536230008233 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 536230008234 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 536230008235 G1 box; other site 536230008236 GTP/Mg2+ binding site; other site 536230008237 Switch I region; other site 536230008238 G2 box; other site 536230008239 Switch II region; other site 536230008240 G3 box; other site 536230008241 G4 box; other site 536230008242 G5 box; other site 536230008243 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 536230008244 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 536230008245 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230008246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230008247 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230008248 Protein of unknown function (DUF419); Region: DUF419; cl09948 536230008249 Protein of unknown function (DUF419); Region: DUF419; cl09948 536230008250 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 536230008251 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 536230008252 putative active site; other site 536230008253 catalytic site; other site 536230008254 putative metal binding site; other site 536230008255 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 536230008256 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 536230008257 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230008258 Walker A/P-loop; other site 536230008259 ATP binding site; other site 536230008260 Q-loop/lid; other site 536230008261 ABC transporter signature motif; other site 536230008262 Walker B; other site 536230008263 D-loop; other site 536230008264 H-loop/switch region; other site 536230008265 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 536230008266 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 536230008267 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230008268 Isochorismatase family; Region: Isochorismatase; pfam00857 536230008269 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 536230008270 catalytic triad; other site 536230008271 conserved cis-peptide bond; other site 536230008272 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536230008273 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536230008274 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline...; Region: APP; cd01085 536230008275 active site 536230008276 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 536230008277 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 536230008278 tRNA; other site 536230008279 putative tRNA binding site; other site 536230008280 putative NADP binding site; other site 536230008281 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 536230008282 peptide chain release factor 1; Validated; Region: prfA; PRK00591 536230008283 RF-1 domain; Region: RF-1; cl02875 536230008284 RF-1 domain; Region: RF-1; cl02875 536230008285 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 536230008286 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 536230008287 S-adenosylmethionine binding site; other site 536230008288 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 536230008289 putative GSH binding site; other site 536230008290 catalytic residues; other site 536230008291 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 536230008292 Flavoprotein; Region: Flavoprotein; cl08021 536230008293 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 536230008294 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 536230008295 putative active site; other site 536230008296 metal-binding site 536230008297 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230008298 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 536230008299 DNA binding site 536230008300 RNA-binding motif; other site 536230008301 putative chaperone; Provisional; Region: PRK11678 536230008302 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 536230008303 putative FMN binding site; other site 536230008304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230008305 putative substrate translocation pore; other site 536230008306 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230008307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230008308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230008309 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 536230008310 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 536230008311 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 536230008312 S-adenosylmethionine binding site; other site 536230008313 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 536230008314 Late embryogenesis abundant protein; Region: LEA_2; cl12118 536230008315 Peptidase family M1; Region: Peptidase_M1; pfam01433 536230008316 aminopeptidase N; Provisional; Region: pepN; PRK14015 536230008317 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 536230008318 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 536230008319 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_C39C; cd02419 536230008320 putative active site; other site 536230008321 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 536230008322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230008323 Walker A/P-loop; other site 536230008324 ATP binding site; other site 536230008325 Q-loop/lid; other site 536230008326 ABC transporter signature motif; other site 536230008327 Walker B; other site 536230008328 D-loop; other site 536230008329 H-loop/switch region; other site 536230008330 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 536230008331 Outer membrane efflux protein; Region: OEP; pfam02321 536230008332 Outer membrane efflux protein; Region: OEP; pfam02321 536230008333 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 536230008334 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 536230008335 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 536230008336 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 536230008337 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 536230008338 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 536230008339 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 536230008340 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230008341 ligand binding site; other site 536230008342 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 536230008343 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 536230008344 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 536230008345 Clp amino terminal domain; Region: Clp_N; pfam02861 536230008346 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230008347 Walker A motif; other site 536230008348 ATP binding site; other site 536230008349 Walker B motif; other site 536230008350 arginine finger; other site 536230008351 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230008352 Walker A motif; other site 536230008353 ATP binding site; other site 536230008354 Walker B motif; other site 536230008355 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536230008356 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 536230008357 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 536230008358 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 536230008359 Protein of unknown function (DUF796); Region: DUF796; cl01226 536230008360 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 536230008361 Protein of unknown function (DUF877); Region: DUF877; pfam05943 536230008362 Protein of unknown function (DUF770); Region: DUF770; cl01402 536230008363 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 536230008364 TPR motif; other site 536230008365 binding surface 536230008366 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 536230008367 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 536230008368 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 536230008369 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 536230008370 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230008371 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 536230008372 Baseplate J-like protein; Region: Baseplate_J; cl01294 536230008373 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 536230008374 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 536230008375 Phage portal protein; Region: Phage_portal; cl01923 536230008376 terminase ATPase subunit; Provisional; Region: P; PHA02535 536230008377 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 536230008378 DNA binding site 536230008379 Int/Topo IB signature motif; other site 536230008380 active site 536230008381 Stringent starvation protein B; Region: SspB; cl01120 536230008382 stringent starvation protein A; Provisional; Region: sspA; PRK09481 536230008383 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 536230008384 C-terminal domain interface; other site 536230008385 putative GSH binding site (G-site); other site 536230008386 dimer interface; other site 536230008387 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_C_SspA; cd03186 536230008388 dimer interface; other site 536230008389 N-terminal domain interface; other site 536230008390 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 536230008391 cytochrome b; Provisional; Region: CYTB; MTH00145 536230008392 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 536230008393 Qi binding site; other site 536230008394 intrachain domain interface; other site 536230008395 interchain domain interface; other site 536230008396 heme bH binding site; other site 536230008397 heme bL binding site; other site 536230008398 Qo binding site; other site 536230008399 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: cytochrome_b_C; cl00193 536230008400 interchain domain interface; other site 536230008401 intrachain domain interface; other site 536230008402 Qi binding site; other site 536230008403 Qo binding site; other site 536230008404 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 536230008405 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 536230008406 [2Fe-2S] cluster binding site; other site 536230008407 Uncharacterized conserved protein [Function unknown]; Region: COG0327 536230008408 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 536230008409 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 536230008410 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 536230008411 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 536230008412 protein binding site; other site 536230008413 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 536230008414 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 536230008415 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 536230008416 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 536230008417 nucleotide binding site/active site; other site 536230008418 HIT family signature motif; other site 536230008419 catalytic residue; other site 536230008420 Predicted membrane protein [Function unknown]; Region: COG3671 536230008421 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 536230008422 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 536230008423 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-; Region: HisF; cd04731 536230008424 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 536230008425 substrate binding site; other site 536230008426 glutamase interaction surface; other site 536230008427 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 536230008428 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 536230008429 catalytic residues; other site 536230008430 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 536230008431 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 536230008432 putative active site; other site 536230008433 oxyanion strand; other site 536230008434 catalytic triad; other site 536230008435 MarC family integral membrane protein; Region: MarC; cl00919 536230008436 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 536230008437 putative active site pocket; other site 536230008438 4-fold oligomerization interface; other site 536230008439 metal binding residues; metal-binding site 536230008440 3-fold/trimer interface; other site 536230008441 histidinol-phosphate aminotransferase; Validated; Region: PRK00950 536230008442 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 536230008443 pyridoxal 5'-phosphate binding site; other site 536230008444 homodimer interface; other site 536230008445 catalytic residue; other site 536230008446 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 536230008447 E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent oxidation of L-histidinol to L...; Region: Histidinol_dh; cd06572 536230008448 NAD binding site; other site 536230008449 dimerization interface; other site 536230008450 product binding site; other site 536230008451 substrate binding site; other site 536230008452 zinc binding site; other site 536230008453 catalytic residues; other site 536230008454 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 536230008455 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 536230008456 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 536230008457 hinge; other site 536230008458 active site 536230008459 BolA-like protein; Region: BolA; cl00386 536230008460 ABC-2 type transporter; Region: ABC2_membrane; cl11417 536230008461 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536230008462 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 536230008463 Walker A/P-loop; other site 536230008464 ATP binding site; other site 536230008465 Q-loop/lid; other site 536230008466 ABC transporter signature motif; other site 536230008467 Walker B; other site 536230008468 D-loop; other site 536230008469 H-loop/switch region; other site 536230008470 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 536230008471 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 536230008472 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 536230008473 VacJ like lipoprotein; Region: VacJ; cl01073 536230008474 mce related protein; Region: MCE; pfam02470 536230008475 Domain of unknown function DUF140; Region: DUF140; cl00510 536230008476 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 536230008477 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 536230008478 Walker A/P-loop; other site 536230008479 ATP binding site; other site 536230008480 Q-loop/lid; other site 536230008481 ABC transporter signature motif; other site 536230008482 Walker B; other site 536230008483 D-loop; other site 536230008484 H-loop/switch region; other site 536230008485 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta...; Region: TMP_TenI; cd00564 536230008486 thiamine phosphate binding site; other site 536230008487 active site 536230008488 pyrophosphate binding site; other site 536230008489 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 536230008490 ThiS interaction site; other site 536230008491 putative active site; other site 536230008492 tetramer interface; other site 536230008493 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 536230008494 thiS-thiF/thiG interaction site; other site 536230008495 FAD dependent oxidoreductase; Region: DAO; pfam01266 536230008496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008497 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 536230008498 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 536230008499 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 536230008500 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 536230008501 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 536230008502 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 536230008503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008504 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 536230008505 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The N-...; Region: GltS; cd00713 536230008506 active site 536230008507 dimer interface; other site 536230008508 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 536230008509 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant...; Region: GltS_FMN; cd02808 536230008510 active site 536230008511 FMN binding site; other site 536230008512 substrate binding site; other site 536230008513 3Fe-4S cluster binding site; other site 536230008514 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 536230008515 domain interface; other site 536230008516 Transposase IS200 like; Region: Transposase_17; cl00848 536230008517 Surface antigen; Region: Surface_Ag_2; cl01155 536230008518 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 536230008519 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 536230008520 active site 536230008521 catalytic site; other site 536230008522 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 536230008523 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 536230008524 Walker A/P-loop; other site 536230008525 ATP binding site; other site 536230008526 Q-loop/lid; other site 536230008527 ABC transporter signature motif; other site 536230008528 Walker B; other site 536230008529 D-loop; other site 536230008530 H-loop/switch region; other site 536230008531 TOBE domain; Region: TOBE_2; cl01440 536230008532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230008533 dimer interface; other site 536230008534 conserved gate region; other site 536230008535 putative PBP binding loops; other site 536230008536 ABC-ATPase subunit interface; other site 536230008537 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 536230008538 dimer interface; other site 536230008539 conserved gate region; other site 536230008540 putative PBP binding loops; other site 536230008541 ABC-ATPase subunit interface; other site 536230008542 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536230008543 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 536230008544 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536230008545 Zn2+ binding site; other site 536230008546 Mg2+ binding site; other site 536230008547 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 536230008548 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 536230008549 active site 536230008550 dimer interface; other site 536230008551 metal-binding site 536230008552 shikimate kinase; Reviewed; Region: aroK; PRK00131 536230008553 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the...; Region: SK; cd00464 536230008554 ADP binding site; other site 536230008555 magnesium binding site; other site 536230008556 putative shikimate binding site; other site 536230008557 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 536230008558 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230008559 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 536230008560 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 536230008561 Transglycosylase; Region: Transgly; cl07896 536230008562 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 536230008563 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 536230008564 putative iron binding site; other site 536230008565 diaminopimelate decarboxylase; Region: lysA; TIGR01048 536230008566 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 536230008567 active site 536230008568 pyridoxal 5'-phosphate (PLP) binding site; other site 536230008569 substrate binding site; other site 536230008570 catalytic residues; other site 536230008571 dimer interface; other site 536230008572 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 536230008573 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY...; Region: YedY_like_Moco; cd02107 536230008574 Moco binding site; other site 536230008575 metal coordination site; other site 536230008576 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 536230008577 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 536230008578 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 536230008579 Cytochrome c; Region: Cytochrom_C; cl11414 536230008580 Cytochrome c; Region: Cytochrom_C; cl11414 536230008581 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 536230008582 G1 box; other site 536230008583 GTP/Mg2+ binding site; other site 536230008584 Switch I region; other site 536230008585 G2 box; other site 536230008586 G3 box; other site 536230008587 Switch II region; other site 536230008588 G4 box; other site 536230008589 G5 box; other site 536230008590 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 536230008591 dimer interface; other site 536230008592 active site 536230008593 aspartate-rich active site metal binding site; other site 536230008594 allosteric magnesium binding site; other site 536230008595 Schiff base residues; other site 536230008596 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 536230008597 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 536230008598 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 536230008599 DsbD alpha interface; other site 536230008600 catalytic residues; other site 536230008601 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 536230008602 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 536230008603 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 536230008604 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 536230008605 alphaNTD homodimer interface; other site 536230008606 alphaNTD - beta interaction site; other site 536230008607 alphaNTD - beta' interaction site; other site 536230008608 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 536230008609 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 536230008610 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 536230008611 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 536230008612 RNA binding surface; other site 536230008613 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 536230008614 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 536230008615 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 536230008616 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 536230008617 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 536230008618 rRNA binding site; other site 536230008619 predicted 30S ribosome binding site; other site 536230008620 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 536230008621 eubacterial secY protein; Region: SecY; pfam00344 536230008622 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 536230008623 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins...; Region: Ribosomal_L30; cd01658 536230008624 23S rRNA binding site; other site 536230008625 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 536230008626 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 536230008627 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 536230008628 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 536230008629 5S rRNA interface; other site 536230008630 L27 interface; other site 536230008631 23S rRNA interface; other site 536230008632 L5 interface; other site 536230008633 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 536230008634 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536230008635 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536230008636 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 536230008637 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 536230008638 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 536230008639 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 536230008640 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 536230008641 KOW motif; Region: KOW; cl00354 536230008642 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 536230008643 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 536230008644 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where...; Region: Ribosomal_L29_HIP; cd00427 536230008645 23S rRNA interface; other site 536230008646 putative translocon interaction site; other site 536230008647 signal recognition particle (SRP54) interaction site; other site 536230008648 L23 interface; other site 536230008649 trigger factor interaction site; other site 536230008650 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 536230008651 23S rRNA interface; other site 536230008652 5S rRNA interface; other site 536230008653 putative antibiotic binding site; other site 536230008654 L25 interface; other site 536230008655 L27 interface; other site 536230008656 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 536230008657 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The...; Region: 30S_S3_KH; cd02412 536230008658 G-X-X-G motif; other site 536230008659 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 536230008660 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 536230008661 putative translocon binding site; other site 536230008662 protein-rRNA interface; other site 536230008663 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 536230008664 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 536230008665 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 536230008666 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 536230008667 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 536230008668 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 536230008669 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 536230008670 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 536230008671 elongation factor Tu; Reviewed; Region: PRK12735 536230008672 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 536230008673 G1 box; other site 536230008674 GEF interaction site; other site 536230008675 GTP/Mg2+ binding site; other site 536230008676 Switch I region; other site 536230008677 G2 box; other site 536230008678 G3 box; other site 536230008679 Switch II region; other site 536230008680 G4 box; other site 536230008681 G5 box; other site 536230008682 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 536230008683 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 536230008684 Antibiotic Binding Site; other site 536230008685 elongation factor G; Reviewed; Region: PRK00007 536230008686 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 536230008687 G1 box; other site 536230008688 putative GEF interaction site; other site 536230008689 GTP/Mg2+ binding site; other site 536230008690 Switch I region; other site 536230008691 G2 box; other site 536230008692 G3 box; other site 536230008693 Switch II region; other site 536230008694 G4 box; other site 536230008695 G5 box; other site 536230008696 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 536230008697 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 536230008698 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 536230008699 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 536230008700 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 536230008701 S17 interaction site; other site 536230008702 S8 interaction site; other site 536230008703 16S rRNA interaction site; other site 536230008704 streptomycin interaction site; other site 536230008705 23S rRNA interaction site; other site 536230008706 aminoacyl-tRNA interaction site (A-site); other site 536230008707 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 536230008708 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 536230008709 ATP binding site; other site 536230008710 putative Mg++ binding site; other site 536230008711 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 536230008712 nucleotide binding region; other site 536230008713 ATP-binding site; other site 536230008714 RQC domain; Region: RQC; pfam09382 536230008715 HRDC domain; Region: HRDC; cl02578 536230008716 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230008717 Transposase; Region: Transposase_12; pfam01610 536230008718 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 536230008719 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 536230008720 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 536230008721 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 536230008722 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02597 536230008723 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 536230008724 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 536230008725 Rpb1 - Rpb6 interaction site; other site 536230008726 DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 536230008727 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 536230008728 DNA binding site 536230008729 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 536230008730 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 536230008731 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 536230008732 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK05258 536230008733 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 536230008734 RPB12 interaction site; other site 536230008735 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 536230008736 RPB11 interaction site; other site 536230008737 RPB12 interaction site; other site 536230008738 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 536230008739 RPB3 interaction site; other site 536230008740 RPB1 interaction site; other site 536230008741 RPB11 interaction site; other site 536230008742 RPB10 interaction site; other site 536230008743 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 536230008744 peripheral dimer interface; other site 536230008745 core dimer interface; other site 536230008746 L10 interface; other site 536230008747 L11 interface; other site 536230008748 putative EF-Tu interaction site; other site 536230008749 putative EF-G interaction site; other site 536230008750 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11...; Region: Ribosomal_L10; cd05797 536230008751 23S rRNA interface; other site 536230008752 Interface with L7/L12 ribosomal proteins; other site 536230008753 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that...; Region: Ribosomal_L1; cd00403 536230008754 mRNA/rRNA interface; other site 536230008755 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 536230008756 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 536230008757 23S rRNA interface; other site 536230008758 L7/L12 interface; other site 536230008759 putative thiostrepton binding site; other site 536230008760 L25 interface; other site 536230008761 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 536230008762 Transcription termination factor nusG; Region: NusG; cl02766 536230008763 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 536230008764 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 536230008765 elongation factor Tu; Reviewed; Region: PRK12735 536230008766 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 536230008767 G1 box; other site 536230008768 GEF interaction site; other site 536230008769 GTP/Mg2+ binding site; other site 536230008770 Switch I region; other site 536230008771 G2 box; other site 536230008772 G3 box; other site 536230008773 Switch II region; other site 536230008774 G4 box; other site 536230008775 G5 box; other site 536230008776 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 536230008777 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 536230008778 Antibiotic Binding Site; other site 536230008779 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and...; Region: XynE_like; cd01830 536230008780 active site 536230008781 catalytic triad; other site 536230008782 oxyanion hole; other site 536230008783 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 536230008784 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 536230008785 Phenylacetic acid degradation B; Region: PaaB; cl01371 536230008786 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 536230008787 Domain of unknown function DUF59; Region: DUF59; cl00941 536230008788 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 536230008789 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 536230008790 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase...; Region: PA_degradation_oxidoreductase_like; cd06214 536230008791 FAD binding pocket; other site 536230008792 FAD binding motif; other site 536230008793 phosphate binding motif; other site 536230008794 beta-alpha-beta structure motif; other site 536230008795 NAD(p) ribose binding residues; other site 536230008796 NAD binding pocket; other site 536230008797 NAD(P)-pyrophosphate-nicotinamide binding residues; other site 536230008798 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 536230008799 catalytic loop; other site 536230008800 iron binding site; other site 536230008801 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 536230008802 Protein of unknown function; Region: DUF3658; pfam12395 536230008803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230008804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230008805 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 536230008806 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230008807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230008808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230008809 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 536230008810 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 536230008811 dimer interface; other site 536230008812 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 536230008813 active site 536230008814 Fe binding site; other site 536230008815 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 536230008816 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 536230008817 dimer interface; other site 536230008818 PYR/PP interface; other site 536230008819 TPP binding site; other site 536230008820 substrate binding site; other site 536230008821 TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the...; Region: TPP_IOR_alpha; cd02008 536230008822 TPP-binding site; other site 536230008823 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 536230008824 malic enzyme; Reviewed; Region: PRK07232 536230008825 Malic enzyme, N-terminal domain; Region: malic; pfam00390 536230008826 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 536230008827 putative NAD(P) binding site; other site 536230008828 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 536230008829 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 536230008830 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 536230008831 substrate binding site; other site 536230008832 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 536230008833 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 536230008834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008835 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230008836 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230008837 Surface antigen; Region: Surface_Ag_2; cl01155 536230008838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230008839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230008840 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 536230008841 dimerization interface; other site 536230008842 LysE type translocator; Region: LysE; cl00565 536230008843 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 536230008844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008845 Ubiquitin-like proteins; Region: UBQ; cl00155 536230008846 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 536230008847 Protein of unknown function DUF82; Region: DUF82; pfam01927 536230008848 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230008849 Amino acid permease; Region: AA_permease; pfam00324 536230008850 Cytochrome c; Region: Cytochrom_C; cl11414 536230008851 hypothetical protein; Provisional; Region: PRK11023 536230008852 Putative phospholipid-binding domain; Region: BON; cl02771 536230008853 Putative phospholipid-binding domain; Region: BON; cl02771 536230008854 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 536230008855 dimer interface; other site 536230008856 active site 536230008857 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 536230008858 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 536230008859 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 536230008860 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 536230008861 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 536230008862 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230008863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230008864 Cation efflux family; Region: Cation_efflux; cl00316 536230008865 H-NS histone family; Region: Histone_HNS; pfam00816 536230008866 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 536230008867 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 536230008868 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230008869 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 536230008870 dimerization interface; other site 536230008871 ligand binding site; other site 536230008872 2-nitropropane dioxygenase; Region: NPD; pfam03060 536230008873 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 536230008874 FMN binding site; other site 536230008875 substrate binding site; other site 536230008876 putative catalytic residue; other site 536230008877 Dienelactone hydrolase family; Region: DLH; pfam01738 536230008878 amidase; Provisional; Region: PRK07869 536230008879 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 536230008880 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine...; Region: MTHFR; cd00537 536230008881 FAD binding site; other site 536230008882 Membrane protein of unknown function; Region: DUF360; cl00850 536230008883 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 536230008884 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 536230008885 oligomerization interface; other site 536230008886 active site 536230008887 NAD+ binding site; other site 536230008888 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 536230008889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230008890 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536230008891 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 536230008892 DNA binding residues 536230008893 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230008894 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 536230008895 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 536230008896 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230008897 FHIPEP family; Region: FHIPEP; cl07980 536230008898 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 536230008899 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 536230008900 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 536230008901 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 536230008902 dimer interface; other site 536230008903 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 536230008904 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 536230008905 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 536230008906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230008907 active site 536230008908 phosphorylation site 536230008909 intermolecular recognition site; other site 536230008910 dimerization interface; other site 536230008911 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 536230008912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230008913 active site 536230008914 phosphorylation site 536230008915 intermolecular recognition site; other site 536230008916 dimerization interface; other site 536230008917 CheB methylesterase; Region: CheB_methylest; pfam01339 536230008918 CheD; Region: CheD; cl00810 536230008919 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 536230008920 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 536230008921 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230008922 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 536230008923 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230008924 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230008925 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 536230008926 putative CheA interaction surface; other site 536230008927 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 536230008928 putative binding surface; other site 536230008929 active site 536230008930 CheY binding; Region: CheY-binding; pfam09078 536230008931 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 536230008932 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 536230008933 ATP binding site; other site 536230008934 Mg2+ binding site; other site 536230008935 G-X-G motif; other site 536230008936 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 536230008937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230008938 active site 536230008939 phosphorylation site 536230008940 intermolecular recognition site; other site 536230008941 dimerization interface; other site 536230008942 flagellar motor protein MotB; Validated; Region: motB; PRK09041 536230008943 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230008944 ligand binding site; other site 536230008945 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 536230008946 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 536230008947 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 536230008948 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 536230008949 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a...; Region: GT1_AviGT4_like; cd03802 536230008950 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230008951 putative ADP-binding pocket; other site 536230008952 H-NS histone family; Region: Histone_HNS; pfam00816 536230008953 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N...; Region: MIP; cd00333 536230008954 amphipathic channel; other site 536230008955 Asn-Pro-Ala signature motifs; other site 536230008956 putative sugar phosphatase; Provisional; Region: PRK10976 536230008957 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 536230008958 active site 536230008959 motif I; other site 536230008960 motif II; other site 536230008961 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 536230008962 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 536230008963 ROK family; Region: ROK; cl09121 536230008964 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 536230008965 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 536230008966 flagellin; Reviewed; Region: PRK08869 536230008967 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536230008968 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536230008969 flagellar capping protein; Reviewed; Region: fliD; PRK08032 536230008970 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 536230008971 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 536230008972 TPR motif; other site 536230008973 binding surface 536230008974 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 536230008975 binding surface 536230008976 TPR motif; other site 536230008977 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 536230008978 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 536230008979 TPR motif; other site 536230008980 binding surface 536230008981 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536230008982 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 536230008983 inhibitor-cofactor binding pocket; inhibition site 536230008984 pyridoxal 5'-phosphate binding site; other site 536230008985 catalytic residue; other site 536230008986 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536230008987 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 536230008988 dimer interface; other site 536230008989 active site 536230008990 CoA binding pocket; other site 536230008991 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230008992 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 536230008993 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536230008994 dimer interface; other site 536230008995 active site 536230008996 CoA binding pocket; other site 536230008997 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 536230008998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008999 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 536230009000 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 536230009001 putative trimer interface; other site 536230009002 putative CoA binding site; other site 536230009003 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 536230009004 [2Fe-2S] cluster binding site; other site 536230009005 LysE type translocator; Region: LysE; cl00565 536230009006 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 536230009007 Phosphoesterase family; Region: Phosphoesterase; cl10627 536230009008 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 536230009009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 536230009010 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 536230009011 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 536230009012 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 536230009013 Cache domain; Region: Cache_1; pfam02743 536230009014 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 536230009015 dimerization interface; other site 536230009016 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230009017 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 536230009018 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230009019 FAD binding domain; Region: FAD_binding_4; cl10516 536230009020 Berberine and berberine like; Region: BBE; pfam08031 536230009021 Chitin binding domain; Region: Chitin_bind_3; pfam03067 536230009022 Cytochrome c; Region: Cytochrom_C; cl11414 536230009023 Cytochrome c; Region: Cytochrom_C; cl11414 536230009024 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 536230009025 UvrD/REP helicase; Region: UvrD-helicase; cl14126 536230009026 FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it turn are loaded onto the acyl...; Region: FeeA_FeeB_like; cd01836 536230009027 oxyanion hole; other site 536230009028 putative oxidoreductase; Provisional; Region: PRK11579 536230009029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230009030 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 536230009031 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 536230009032 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 536230009033 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L...; Region: GCS_H; cd06848 536230009034 lipoyl attachment site; other site 536230009035 glycine dehydrogenase; Provisional; Region: PRK05367 536230009036 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 536230009037 tetramer interface; other site 536230009038 pyridoxal 5'-phosphate binding site; other site 536230009039 catalytic residue; other site 536230009040 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 536230009041 tetramer interface; other site 536230009042 pyridoxal 5'-phosphate binding site; other site 536230009043 catalytic residue; other site 536230009044 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 536230009045 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 536230009046 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 536230009047 thiamine pyrophosphate protein; Validated; Region: PRK08199 536230009048 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230009049 PYR/PP interface; other site 536230009050 dimer interface; other site 536230009051 TPP binding site; other site 536230009052 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230009053 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cd00568 536230009054 TPP-binding site; other site 536230009055 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 536230009056 transcriptional regulator EutR; Provisional; Region: PRK10130 536230009057 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 536230009058 NAD(P) binding site; other site 536230009059 catalytic residues; other site 536230009060 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 536230009061 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; cl09205 536230009062 ethanolamine permease; Region: 2A0305; TIGR00908 536230009063 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 536230009064 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 536230009065 Conserved TM helix; Region: TM_helix; pfam05552 536230009066 Conserved TM helix; Region: TM_helix; pfam05552 536230009067 Conserved TM helix; Region: TM_helix; pfam05552 536230009068 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 536230009069 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 536230009070 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536230009071 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 536230009072 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 536230009073 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 536230009074 DNA binding residues 536230009075 dimer interface; other site 536230009076 putative metal binding site; other site 536230009077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230009078 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 536230009079 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 536230009080 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230009081 substrate binding pocket; other site 536230009082 membrane-bound complex binding site; other site 536230009083 hinge residues; other site 536230009084 putative aminotransferase; Validated; Region: PRK09082 536230009085 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 536230009086 pyridoxal 5'-phosphate binding site; other site 536230009087 homodimer interface; other site 536230009088 catalytic residue; other site 536230009089 transcription termination factor Rho; Provisional; Region: PRK12678 536230009090 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230009091 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 536230009092 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230009093 active site 536230009094 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 536230009095 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230009096 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230009097 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 536230009098 dimerization interface; other site 536230009099 ligand binding site; other site 536230009100 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 536230009101 Predicted transcriptional regulator [Transcription]; Region: COG3905 536230009102 Proline dehydrogenase; Region: Pro_dh; cl03282 536230009103 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 536230009104 Glutamate binding site; other site 536230009105 NAD binding site; other site 536230009106 catalytic residues; other site 536230009107 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230009108 primosome assembly protein PriA; Validated; Region: PRK05580 536230009109 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 536230009110 ATP binding site; other site 536230009111 putative Mg++ binding site; other site 536230009112 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; cl12029 536230009113 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 536230009114 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This...; Region: URO-D; cd00717 536230009115 substrate binding site; other site 536230009116 active site 536230009117 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 536230009118 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230009119 substrate binding pocket; other site 536230009120 membrane-bound complex binding site; other site 536230009121 hinge residues; other site 536230009122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230009123 AMP-binding domain protein; Validated; Region: PRK08315 536230009124 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 536230009125 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 536230009126 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 536230009127 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 536230009128 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 536230009129 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536230009130 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 536230009131 alpha subunit interaction interface; other site 536230009132 Walker A motif; other site 536230009133 ATP binding site; other site 536230009134 Walker B motif; other site 536230009135 inhibitor binding site; inhibition site 536230009136 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536230009137 ATP synthase; Region: ATP-synt; cl00365 536230009138 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 536230009139 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536230009140 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 536230009141 beta subunit interaction interface; other site 536230009142 Walker A motif; other site 536230009143 ATP binding site; other site 536230009144 Walker B motif; other site 536230009145 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536230009146 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 536230009147 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 536230009148 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 536230009149 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 536230009150 ATP synthase subunit C; Region: ATP-synt_C; cl00466 536230009151 ATP synthase A chain; Region: ATP-synt_A; cl00413 536230009152 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 536230009153 transmembrane helices; other site 536230009154 ParB-like partition proteins; Region: parB_part; TIGR00180 536230009155 ParB-like nuclease domain; Region: ParBc; cl02129 536230009156 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 536230009157 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 536230009158 P-loop; other site 536230009159 Magnesium ion binding site; other site 536230009160 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 536230009161 Magnesium ion binding site; other site 536230009162 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230009163 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 536230009164 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 536230009165 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 536230009166 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230009167 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 536230009168 Walker A/P-loop; other site 536230009169 ATP binding site; other site 536230009170 Q-loop/lid; other site 536230009171 ABC transporter signature motif; other site 536230009172 Walker B; other site 536230009173 D-loop; other site 536230009174 H-loop/switch region; other site 536230009175 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 536230009176 TM-ABC transporter signature motif; other site 536230009177 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230009178 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 536230009179 Walker A/P-loop; other site 536230009180 ATP binding site; other site 536230009181 Q-loop/lid; other site 536230009182 ABC transporter signature motif; other site 536230009183 Walker B; other site 536230009184 D-loop; other site 536230009185 H-loop/switch region; other site 536230009186 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 536230009187 TM-ABC transporter signature motif; other site 536230009188 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230009189 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 536230009190 putative ligand binding site; other site 536230009191 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536230009192 potential frameshift: common BLAST hit: gi|126454800|ref|YP_001068281.1| putative amino acid uptake ABC transporter, permease protein 536230009193 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 536230009194 TM-ABC transporter signature motif; other site 536230009195 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 536230009196 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 536230009197 TM-ABC transporter signature motif; other site 536230009198 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230009199 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 536230009200 putative ligand binding site; other site 536230009201 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230009202 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 536230009203 Walker A/P-loop; other site 536230009204 ATP binding site; other site 536230009205 Q-loop/lid; other site 536230009206 ABC transporter signature motif; other site 536230009207 Walker B; other site 536230009208 D-loop; other site 536230009209 H-loop/switch region; other site 536230009210 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230009211 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 536230009212 Walker A/P-loop; other site 536230009213 ATP binding site; other site 536230009214 Q-loop/lid; other site 536230009215 ABC transporter signature motif; other site 536230009216 Walker B; other site 536230009217 D-loop; other site 536230009218 H-loop/switch region; other site 536230009219 choline dehydrogenase; Validated; Region: PRK02106 536230009220 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 536230009221 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230009222 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 536230009223 tetrameric interface; other site 536230009224 NAD binding site; other site 536230009225 catalytic residues; other site 536230009226 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230009227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230009228 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 536230009229 dimerization interface; other site 536230009230 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 536230009231 putative active site; other site 536230009232 putative metal binding residues; other site 536230009233 signature motif; other site 536230009234 putative triphosphate binding site; other site 536230009235 dimer interface; other site 536230009236 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230009237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230009238 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH)...; Region: pro_PheOH; cd03348 536230009239 cofactor binding site; other site 536230009240 metal-binding site 536230009241 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 536230009242 aromatic arch; other site 536230009243 DCoH dimer interaction site; other site 536230009244 DCoH /HNF-1 dimer interaction site; other site 536230009245 DCoH tetramer interaction site; other site 536230009246 substrate binding site; other site 536230009247 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 536230009248 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230009249 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230009250 active site 536230009251 phosphorylation site 536230009252 intermolecular recognition site; other site 536230009253 dimerization interface; other site 536230009254 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230009255 DNA binding site 536230009256 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 536230009257 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230009258 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230009259 dimer interface; other site 536230009260 phosphorylation site 536230009261 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 536230009262 ATP binding site; other site 536230009263 Mg2+ binding site; other site 536230009264 G-X-G motif; other site 536230009265 SET domain; Region: SET; cl02566 536230009266 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 536230009267 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 536230009268 active site 536230009269 FMN binding site; other site 536230009270 substrate binding site; other site 536230009271 homotetramer interface; other site 536230009272 catalytic residue; other site 536230009273 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 536230009274 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 536230009275 catalytic triad; other site 536230009276 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230009277 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230009278 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 536230009279 uncharacterized enzyme; Region: gshA_cyan_rel; TIGR02050 536230009280 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536230009281 5-methylaminomethyl-2-thiouridine methyltransferase; Reviewed; Region: mnmC; PRK01747 536230009282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230009283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230009284 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher...; Region: HU_IHF; cd00591 536230009285 IHF dimer interface; other site 536230009286 IHF - DNA interface; other site 536230009287 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 536230009288 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 536230009289 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 536230009290 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 536230009291 N-acetyl-D-glucosamine binding site; other site 536230009292 catalytic residue; other site 536230009293 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 536230009294 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230009295 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230009296 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230009297 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 536230009298 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 536230009299 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 536230009300 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 536230009301 Walker A motif; other site 536230009302 ATP binding site; other site 536230009303 Walker B motif; other site 536230009304 general secretion pathway protein F; Region: GspF; TIGR02120 536230009305 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230009306 Alkaline phytoceramidase (aPHC); Region: aPHC; pfam05875 536230009307 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 536230009308 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 536230009309 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 536230009310 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 536230009311 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 536230009312 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 536230009313 general secretion pathway protein I; Region: gspI; TIGR01707 536230009314 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 536230009315 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 536230009316 General secretion pathway protein K; Region: GspK; pfam03934 536230009317 General secretion pathway protein L (GspL); Region: GspL; cl11448 536230009318 General secretion pathway protein L (GspL); Region: GspL; cl11448 536230009319 General secretion pathway, M protein; Region: GspM; cl01222 536230009320 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 536230009321 NodT family; Region: outer_NodT; TIGR01845 536230009322 Outer membrane efflux protein; Region: OEP; pfam02321 536230009323 Outer membrane efflux protein; Region: OEP; pfam02321 536230009324 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230009325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230009326 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230009327 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230009328 putative substrate translocation pore; other site 536230009329 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 536230009330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230009331 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230009332 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 536230009333 putative dimerization interface; other site 536230009334 LrgA family; Region: LrgA; cl00608 536230009335 LrgB-like family; Region: LrgB; cl00596 536230009336 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 536230009337 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 536230009338 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 536230009339 flagellar motor switch protein; Validated; Region: fliN; PRK05698 536230009340 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 536230009341 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 536230009342 FliP family; Region: FliP; cl00593 536230009343 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 536230009344 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 536230009345 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 536230009346 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 536230009347 DNA binding residues 536230009348 putative dimer interface; other site 536230009349 putative metal binding residues; other site 536230009350 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 536230009351 S-adenosylmethionine binding site; other site 536230009352 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 536230009353 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 536230009354 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230009355 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 536230009356 Walker A/P-loop; other site 536230009357 ATP binding site; other site 536230009358 Q-loop/lid; other site 536230009359 ABC transporter signature motif; other site 536230009360 Walker B; other site 536230009361 D-loop; other site 536230009362 H-loop/switch region; other site 536230009363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 536230009364 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 536230009365 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 536230009366 dimer interface; other site 536230009367 phosphorylation site 536230009368 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 536230009369 ATP binding site; other site 536230009370 Mg2+ binding site; other site 536230009371 G-X-G motif; other site 536230009372 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230009373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 536230009374 active site 536230009375 phosphorylation site 536230009376 intermolecular recognition site; other site 536230009377 dimerization interface; other site 536230009378 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 536230009379 DNA binding site 536230009380 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230009381 trimer interface; other site 536230009382 eyelet of channel; other site 536230009383 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230009384 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 536230009385 Restriction endonuclease [Defense mechanisms]; Region: COG3587 536230009386 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; cl12029 536230009387 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 536230009388 trimer interface; other site 536230009389 eyelet of channel; other site 536230009390 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 536230009391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230009392 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230009393 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 536230009394 Walker A/P-loop; other site 536230009395 ATP binding site; other site 536230009396 Q-loop/lid; other site 536230009397 ABC transporter signature motif; other site 536230009398 Walker B; other site 536230009399 D-loop; other site 536230009400 H-loop/switch region; other site 536230009401 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230009402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230009403 Walker A/P-loop; other site 536230009404 ATP binding site; other site 536230009405 Q-loop/lid; other site 536230009406 ABC transporter signature motif; other site 536230009407 Walker B; other site 536230009408 D-loop; other site 536230009409 H-loop/switch region; other site 536230009410 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 536230009411 TM-ABC transporter signature motif; other site 536230009412 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 536230009413 TM-ABC transporter signature motif; other site 536230009414 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_7; cd06341 536230009415 putative ligand binding site; other site 536230009416 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230009417 NAD(P) binding site; other site 536230009418 catalytic residues; other site 536230009419 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 536230009420 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 536230009421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230009422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230009423 choline dehydrogenase; Validated; Region: PRK02106 536230009424 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 536230009425 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230009426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 536230009427 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 536230009428 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 536230009429 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230009430 putative di-iron ligands; other site 536230009431 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 536230009432 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 536230009433 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230009434 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 536230009435 conserved cys residue; other site 536230009436 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230009437 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230009438 active site 536230009439 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 536230009440 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 536230009441 dimer interface; other site 536230009442 active site 536230009443 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 536230009444 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cd06558 536230009445 substrate binding site; other site 536230009446 oxyanion hole (OAH) forming residues; other site 536230009447 trimer interface; other site 536230009448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230009449 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230009450 CoA-transferase family III; Region: CoA_transf_3; cl00778 536230009451 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 536230009452 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 536230009453 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230009454 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 536230009455 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 536230009456 putative heme binding pocket; other site 536230009457 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 536230009458 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 536230009459 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 536230009460 ATP binding site; other site 536230009461 Mg2+ binding site; other site 536230009462 G-X-G motif; other site 536230009463 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 536230009464 anchoring element; other site 536230009465 dimer interface; other site 536230009466 ATP binding site; other site 536230009467 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 536230009468 active site 536230009469 putative metal-binding site; other site 536230009470 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536230009471 DNA polymerase III subunit beta; Validated; Region: PRK05643 536230009472 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the...; Region: beta_clamp; cd00140 536230009473 putative DNA binding surface; other site 536230009474 dimer interface; other site 536230009475 beta-clamp/clamp loader binding surface; other site 536230009476 beta-clamp/translesion DNA polymerase binding surface; other site 536230009477 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 536230009478 Walker A motif; other site 536230009479 ATP binding site; other site 536230009480 Walker B motif; other site 536230009481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 536230009482 arginine finger; other site 536230009483 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 536230009484 DnaA box-binding interface; other site