-- dump date 20140619_015236 -- class Genbank::misc_feature -- table misc_feature_note -- id note 536230000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 536230000002 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 536230000003 Ribonuclease P; Region: Ribonuclease_P; cl00457 536230000004 hypothetical protein; Validated; Region: PRK00041 536230000005 membrane protein insertase; Provisional; Region: PRK01318 536230000006 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 536230000007 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 536230000008 sequence-specific DNA binding site [nucleotide binding]; other site 536230000009 salt bridge; other site 536230000010 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 536230000011 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 536230000012 trmE is a tRNA modification GTPase; Region: trmE; cd04164 536230000013 G1 box; other site 536230000014 GTP/Mg2+ binding site [chemical binding]; other site 536230000015 Switch I region; other site 536230000016 G2 box; other site 536230000017 Switch II region; other site 536230000018 G3 box; other site 536230000019 G4 box; other site 536230000020 G5 box; other site 536230000021 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 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 active site 536230000025 Int/Topo IB signature motif; other 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. DnaG...; Region: TOPRIM_primases; cd01029 536230000029 active site 536230000030 metal binding site [ion binding]; metal-binding site 536230000031 interdomain interaction site; other site 536230000032 Domain of unknown function (DUF927); Region: DUF927; pfam06048 536230000033 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 536230000034 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 536230000035 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 536230000036 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 536230000037 catalytic residues [active] 536230000038 catalytic nucleophile [active] 536230000039 Presynaptic Site I dimer interface [polypeptide binding]; other site 536230000040 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536230000041 Synaptic Flat tetramer interface [polypeptide binding]; other site 536230000042 Synaptic Site I dimer interface [polypeptide binding]; other site 536230000043 DNA binding site [nucleotide binding] 536230000044 AAA domain; Region: AAA_14; pfam13173 536230000045 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 536230000046 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 536230000047 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 536230000048 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 536230000049 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536230000050 YaeQ protein; Region: YaeQ; pfam07152 536230000051 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 536230000052 dimer interface [polypeptide binding]; other site 536230000053 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536230000054 metal binding site [ion binding]; metal-binding site 536230000055 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 536230000056 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 536230000057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230000058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230000059 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 536230000060 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 536230000061 DNA binding site [nucleotide binding] 536230000062 active site 536230000063 AlkA N-terminal domain; Region: AlkA_N; pfam06029 536230000064 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 536230000065 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230000066 minor groove reading motif; other site 536230000067 helix-hairpin-helix signature motif; other site 536230000068 substrate binding pocket [chemical binding]; other site 536230000069 active site 536230000070 glutamate--cysteine ligase; Provisional; Region: PRK02107 536230000071 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 536230000072 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230000073 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536230000074 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230000075 DNA binding residues [nucleotide binding] 536230000076 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 536230000077 dimer interface [polypeptide binding]; other site 536230000078 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230000079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230000080 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 536230000081 putative effector binding pocket; other site 536230000082 dimerization interface [polypeptide binding]; other site 536230000083 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 536230000084 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536230000085 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 536230000086 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 536230000087 active site 536230000088 metal binding site [ion binding]; metal-binding site 536230000089 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 536230000090 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 536230000091 putative active site; other site 536230000092 catalytic triad [active] 536230000093 putative dimer interface [polypeptide binding]; other site 536230000094 portal vertex protein; Provisional; Region: Q; PHA02536 536230000095 Phage portal protein; Region: Phage_portal; pfam04860 536230000096 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 536230000097 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 536230000098 CoenzymeA binding site [chemical binding]; other site 536230000099 subunit interaction site [polypeptide binding]; other site 536230000100 PHB binding site; other site 536230000101 Patatin-like phospholipase; Region: Patatin; pfam01734 536230000102 active site 536230000103 nucleophile elbow; other site 536230000104 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 536230000105 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 536230000106 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 536230000107 dimerization interface [polypeptide binding]; other site 536230000108 NAD binding site [chemical binding]; other site 536230000109 ligand binding site [chemical binding]; other site 536230000110 catalytic site [active] 536230000111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230000112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230000113 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 536230000114 putative effector binding pocket; other site 536230000115 dimerization interface [polypeptide binding]; other site 536230000116 DNA topoisomerase III; Validated; Region: PRK08173 536230000117 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 536230000118 active site 536230000119 putative interdomain interaction site [polypeptide binding]; other site 536230000120 putative metal-binding site [ion binding]; other site 536230000121 putative nucleotide binding site [chemical binding]; other site 536230000122 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 536230000123 domain I; other site 536230000124 DNA binding groove [nucleotide binding] 536230000125 phosphate binding site [ion binding]; other site 536230000126 domain II; other site 536230000127 domain III; other site 536230000128 nucleotide binding site [chemical binding]; other site 536230000129 catalytic site [active] 536230000130 domain IV; other site 536230000131 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 536230000132 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 536230000133 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 536230000134 catalytic residues [active] 536230000135 DNA protecting protein DprA; Region: dprA; TIGR00732 536230000136 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 536230000137 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 536230000138 active site 536230000139 catalytic residues [active] 536230000140 metal binding site [ion binding]; metal-binding site 536230000141 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 536230000142 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 536230000143 putative active site [active] 536230000144 substrate binding site [chemical binding]; other site 536230000145 putative cosubstrate binding site; other site 536230000146 catalytic site [active] 536230000147 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 536230000148 substrate binding site [chemical binding]; other site 536230000149 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 536230000150 M48 family peptidase; Provisional; Region: PRK03001 536230000151 16S rRNA methyltransferase B; Provisional; Region: PRK10901 536230000152 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 536230000153 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 536230000154 S-adenosylmethionine binding site [chemical binding]; other site 536230000155 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 536230000156 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 536230000157 dimerization interface [polypeptide binding]; other site 536230000158 PAS domain; Region: PAS; smart00091 536230000159 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 536230000160 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230000161 dimer interface [polypeptide binding]; other site 536230000162 phosphorylation site [posttranslational modification] 536230000163 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 536230000164 ATP binding site [chemical binding]; other site 536230000165 Mg2+ binding site [ion binding]; other site 536230000166 G-X-G motif; other site 536230000167 Response regulator receiver domain; Region: Response_reg; pfam00072 536230000168 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 536230000169 active site 536230000170 phosphorylation site [posttranslational modification] 536230000171 intermolecular recognition site; other site 536230000172 dimerization interface [polypeptide binding]; other site 536230000173 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 536230000174 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 536230000175 Ligand Binding Site [chemical binding]; other site 536230000176 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 536230000177 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 536230000178 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 536230000179 active site 536230000180 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 536230000181 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536230000182 Sel1 repeat; Region: Sel1; cl02723 536230000183 Sel1-like repeats; Region: SEL1; smart00671 536230000184 Sel1-like repeats; Region: SEL1; smart00671 536230000185 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 536230000186 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 536230000187 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536230000188 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 536230000189 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 536230000190 rod shape-determining protein MreC; Provisional; Region: PRK13922 536230000191 rod shape-determining protein MreC; Region: MreC; pfam04085 536230000192 rod shape-determining protein MreB; Provisional; Region: PRK13927 536230000193 MreB and similar proteins; Region: MreB_like; cd10225 536230000194 nucleotide binding site [chemical binding]; other site 536230000195 Mg binding site [ion binding]; other site 536230000196 putative protofilament interaction site [polypeptide binding]; other site 536230000197 RodZ interaction site [polypeptide binding]; other site 536230000198 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 536230000199 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 536230000200 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 536230000201 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 536230000202 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 536230000203 GatB domain; Region: GatB_Yqey; smart00845 536230000204 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 536230000205 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 536230000206 putative active site [active] 536230000207 putative catalytic site [active] 536230000208 putative DNA binding site [nucleotide binding]; other site 536230000209 putative phosphate binding site [ion binding]; other site 536230000210 metal binding site A [ion binding]; metal-binding site 536230000211 putative AP binding site [nucleotide binding]; other site 536230000212 putative metal binding site B [ion binding]; other site 536230000213 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 536230000214 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 536230000215 putative NAD(P) binding site [chemical binding]; other site 536230000216 putative substrate binding site [chemical binding]; other site 536230000217 catalytic Zn binding site [ion binding]; other site 536230000218 structural Zn binding site [ion binding]; other site 536230000219 dimer interface [polypeptide binding]; other site 536230000220 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 536230000221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230000222 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230000223 Peptidase family M48; Region: Peptidase_M48; cl12018 536230000224 muropeptide transporter; Reviewed; Region: ampG; PRK11902 536230000225 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 536230000226 putative substrate translocation pore; other site 536230000227 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536230000228 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 536230000229 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 536230000230 division inhibitor protein; Provisional; Region: slmA; PRK09480 536230000231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230000232 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 536230000233 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 536230000234 feedback inhibition sensing region; other site 536230000235 homohexameric interface [polypeptide binding]; other site 536230000236 nucleotide binding site [chemical binding]; other site 536230000237 N-acetyl-L-glutamate binding site [chemical binding]; other site 536230000238 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230000239 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 536230000240 dimer interface [polypeptide binding]; other site 536230000241 phosphorylation site [posttranslational modification] 536230000242 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 536230000243 ATP binding site [chemical binding]; other site 536230000244 Mg2+ binding site [ion binding]; other site 536230000245 G-X-G motif; other site 536230000246 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 536230000247 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 536230000248 active site 536230000249 phosphorylation site [posttranslational modification] 536230000250 intermolecular recognition site; other site 536230000251 dimerization interface [polypeptide binding]; other site 536230000252 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536230000253 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 536230000254 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230000255 Walker A motif; other site 536230000256 ATP binding site [chemical binding]; other site 536230000257 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 536230000258 Walker B motif; other site 536230000259 arginine finger; other site 536230000260 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 536230000261 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 536230000262 active site 536230000263 HslU subunit interaction site [polypeptide binding]; other site 536230000264 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 536230000265 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 536230000266 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 536230000267 P-loop, Walker A motif; other site 536230000268 Base recognition motif; other site 536230000269 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 536230000270 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 536230000271 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 536230000272 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 536230000273 putative RNA binding site [nucleotide binding]; other site 536230000274 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 536230000275 S-adenosylmethionine binding site [chemical binding]; other site 536230000276 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 536230000277 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 536230000278 active site 536230000279 DNA binding site [nucleotide binding] 536230000280 Int/Topo IB signature motif; other site 536230000281 Protein of unknown function, DUF484; Region: DUF484; cl17449 536230000282 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 536230000283 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536230000284 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536230000285 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 536230000286 putative acyl-acceptor binding pocket; other site 536230000287 S-adenosylmethionine synthetase; Validated; Region: PRK05250 536230000288 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 536230000289 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 536230000290 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 536230000291 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 536230000292 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 536230000293 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 536230000294 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536230000295 active site 536230000296 catalytic tetrad [active] 536230000297 EamA-like transporter family; Region: EamA; pfam00892 536230000298 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 536230000299 putative substrate translocation pore; other site 536230000300 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 536230000301 serine/threonine protein kinase; Provisional; Region: PRK11768 536230000302 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 536230000303 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 536230000304 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 536230000305 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 536230000306 NAD(P) binding site [chemical binding]; other site 536230000307 catalytic residues [active] 536230000308 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 536230000309 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230000310 active site 536230000311 choline dehydrogenase; Validated; Region: PRK02106 536230000312 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230000313 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 536230000314 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 536230000315 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 536230000316 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 536230000317 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 536230000318 Walker A motif/ATP binding site; other site 536230000319 Walker B motif; other site 536230000320 flagellar assembly protein H; Validated; Region: fliH; PRK05687 536230000321 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 536230000322 Flagellar assembly protein FliH; Region: FliH; pfam02108 536230000323 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 536230000324 FliG C-terminal domain; Region: FliG_C; pfam01706 536230000325 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 536230000326 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 536230000327 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 536230000328 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 536230000329 flagellar protein FliS; Validated; Region: fliS; PRK05685 536230000330 Flagellar protein FliT; Region: FliT; cl05125 536230000331 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 536230000332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 536230000333 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 536230000334 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 536230000335 XdhC Rossmann domain; Region: XdhC_C; pfam13478 536230000336 amino acid transporter; Region: 2A0306; TIGR00909 536230000337 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 536230000338 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230000339 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 536230000340 active site 536230000341 phosphorylation site [posttranslational modification] 536230000342 intermolecular recognition site; other site 536230000343 dimerization interface [polypeptide binding]; other site 536230000344 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230000345 DNA binding residues [nucleotide binding] 536230000346 dimerization interface [polypeptide binding]; other site 536230000347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 536230000348 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 536230000349 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 536230000350 FAD binding pocket [chemical binding]; other site 536230000351 FAD binding motif [chemical binding]; other site 536230000352 phosphate binding motif [ion binding]; other site 536230000353 beta-alpha-beta structure motif; other site 536230000354 NAD binding pocket [chemical binding]; other site 536230000355 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 536230000356 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 536230000357 putative catalytic site [active] 536230000358 putative phosphate binding site [ion binding]; other site 536230000359 putative metal binding site [ion binding]; other site 536230000360 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230000361 Walker A motif; other site 536230000362 ATP binding site [chemical binding]; other site 536230000363 Walker B motif; other site 536230000364 arginine finger; other site 536230000365 Predicted dehydrogenase [General function prediction only]; Region: COG0579 536230000366 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536230000367 High potential iron-sulfur protein; Region: HIPIP; pfam01355 536230000368 citrate-proton symporter; Provisional; Region: PRK15075 536230000369 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 536230000370 putative substrate translocation pore; other site 536230000371 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536230000372 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 536230000373 peptide binding site [polypeptide binding]; other site 536230000374 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 536230000375 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230000376 dimer interface [polypeptide binding]; other site 536230000377 conserved gate region; other site 536230000378 putative PBP binding loops; other site 536230000379 ABC-ATPase subunit interface; other site 536230000380 dipeptide transporter; Provisional; Region: PRK10913 536230000381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230000382 dimer interface [polypeptide binding]; other site 536230000383 conserved gate region; other site 536230000384 putative PBP binding loops; other site 536230000385 ABC-ATPase subunit interface; other site 536230000386 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 536230000387 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536230000388 Walker A/P-loop; other site 536230000389 ATP binding site [chemical binding]; other site 536230000390 Q-loop/lid; other site 536230000391 ABC transporter signature motif; other site 536230000392 Walker B; other site 536230000393 D-loop; other site 536230000394 H-loop/switch region; other site 536230000395 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230000396 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 536230000397 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536230000398 Walker A/P-loop; other site 536230000399 ATP binding site [chemical binding]; other site 536230000400 Q-loop/lid; other site 536230000401 ABC transporter signature motif; other site 536230000402 Walker B; other site 536230000403 D-loop; other site 536230000404 H-loop/switch region; other site 536230000405 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 536230000406 TraB family; Region: TraB; pfam01963 536230000407 Predicted membrane protein [Function unknown]; Region: COG3817 536230000408 Protein of unknown function (DUF979); Region: DUF979; pfam06166 536230000409 Protein of unknown function (DUF969); Region: DUF969; pfam06149 536230000410 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 536230000411 putative active site [active] 536230000412 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 536230000413 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 536230000414 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 536230000415 MarR family; Region: MarR_2; cl17246 536230000416 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 536230000417 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 536230000418 lytic murein transglycosylase; Provisional; Region: PRK11619 536230000419 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536230000420 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536230000421 catalytic residue [active] 536230000422 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 536230000423 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 536230000424 putative NAD(P) binding site [chemical binding]; other site 536230000425 active site 536230000426 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536230000427 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 536230000428 putative C-terminal domain interface [polypeptide binding]; other site 536230000429 putative GSH binding site (G-site) [chemical binding]; other site 536230000430 putative dimer interface [polypeptide binding]; other site 536230000431 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 536230000432 putative N-terminal domain interface [polypeptide binding]; other site 536230000433 putative dimer interface [polypeptide binding]; other site 536230000434 putative substrate binding pocket (H-site) [chemical binding]; other site 536230000435 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 536230000436 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 536230000437 active site 536230000438 NTP binding site [chemical binding]; other site 536230000439 metal binding triad [ion binding]; metal-binding site 536230000440 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 536230000441 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 536230000442 Killing trait; Region: RebB; pfam11747 536230000443 FlgN protein; Region: FlgN; pfam05130 536230000444 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 536230000445 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 536230000446 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 536230000447 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 536230000448 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 536230000449 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 536230000450 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536230000451 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536230000452 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 536230000453 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 536230000454 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 536230000455 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 536230000456 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536230000457 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 536230000458 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536230000459 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 536230000460 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536230000461 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 536230000462 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 536230000463 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536230000464 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536230000465 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 536230000466 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 536230000467 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 536230000468 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 536230000469 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 536230000470 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 536230000471 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 536230000472 Flagellar regulator YcgR; Region: YcgR; pfam07317 536230000473 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 536230000474 PilZ domain; Region: PilZ; pfam07238 536230000475 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 536230000476 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536230000477 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 536230000478 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536230000479 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 536230000480 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 536230000481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230000482 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 536230000483 dimerization interface [polypeptide binding]; other site 536230000484 substrate binding pocket [chemical binding]; other site 536230000485 Chromate transporter; Region: Chromate_transp; pfam02417 536230000486 Chromate transporter; Region: Chromate_transp; pfam02417 536230000487 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 536230000488 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 536230000489 PhnA protein; Region: PhnA; pfam03831 536230000490 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 536230000491 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230000492 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230000493 trimer interface [polypeptide binding]; other site 536230000494 eyelet of channel; other site 536230000495 putative membrane protein; Region: HpnL; TIGR03476 536230000496 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 536230000497 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 536230000498 ligand binding site; other site 536230000499 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 536230000500 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 536230000501 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 536230000502 glutathione reductase; Validated; Region: PRK06116 536230000503 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536230000504 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536230000505 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536230000506 argininosuccinate synthase; Validated; Region: PRK05370 536230000507 argininosuccinate synthase; Provisional; Region: PRK13820 536230000508 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 536230000509 metal-binding site [ion binding] 536230000510 YHS domain; Region: YHS; pfam04945 536230000511 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 536230000512 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536230000513 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536230000514 LemA family; Region: LemA; pfam04011 536230000515 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 536230000516 Repair protein; Region: Repair_PSII; pfam04536 536230000517 Repair protein; Region: Repair_PSII; pfam04536 536230000518 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 536230000519 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230000520 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 536230000521 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 536230000522 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 536230000523 Avidin family; Region: Avidin; pfam01382 536230000524 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 536230000525 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 536230000526 glutaminase active site [active] 536230000527 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 536230000528 dimer interface [polypeptide binding]; other site 536230000529 active site 536230000530 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 536230000531 dimer interface [polypeptide binding]; other site 536230000532 active site 536230000533 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 536230000534 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 536230000535 Substrate binding site; other site 536230000536 Mg++ binding site; other site 536230000537 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 536230000538 active site 536230000539 substrate binding site [chemical binding]; other site 536230000540 CoA binding site [chemical binding]; other site 536230000541 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 536230000542 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 536230000543 Ligand Binding Site [chemical binding]; other site 536230000544 Dihydroneopterin aldolase; Region: FolB; smart00905 536230000545 active site 536230000546 short chain dehydrogenase; Provisional; Region: PRK09134 536230000547 Uncharacterized conserved protein [Function unknown]; Region: COG1565 536230000548 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 536230000549 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 536230000550 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230000551 putative substrate binding site [chemical binding]; other site 536230000552 putative ATP binding site [chemical binding]; other site 536230000553 dimerization interface [polypeptide binding]; other site 536230000554 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 536230000555 putative active cleft [active] 536230000556 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230000557 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230000558 DNA binding site [nucleotide binding] 536230000559 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 536230000560 ligand binding site [chemical binding]; other site 536230000561 dimerization interface [polypeptide binding]; other site 536230000562 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 536230000563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230000564 dimer interface [polypeptide binding]; other site 536230000565 putative CheW interface [polypeptide binding]; other site 536230000566 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 536230000567 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 536230000568 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230000569 trimer interface [polypeptide binding]; other site 536230000570 eyelet of channel; other site 536230000571 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230000572 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230000573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230000574 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 536230000575 putative effector binding pocket; other site 536230000576 dimerization interface [polypeptide binding]; other site 536230000577 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230000578 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 536230000579 FMN binding site [chemical binding]; other site 536230000580 substrate binding site [chemical binding]; other site 536230000581 putative catalytic residue [active] 536230000582 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230000583 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230000584 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 536230000585 dimerization interface [polypeptide binding]; other site 536230000586 putative DNA binding site [nucleotide binding]; other site 536230000587 putative Zn2+ binding site [ion binding]; other site 536230000588 AsnC family; Region: AsnC_trans_reg; pfam01037 536230000589 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536230000590 EamA-like transporter family; Region: EamA; pfam00892 536230000591 EamA-like transporter family; Region: EamA; pfam00892 536230000592 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 536230000593 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 536230000594 putative deacylase active site [active] 536230000595 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 536230000596 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 536230000597 active site 536230000598 catalytic residues [active] 536230000599 metal binding site [ion binding]; metal-binding site 536230000600 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 536230000601 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 536230000602 putative ligand binding site [chemical binding]; other site 536230000603 NAD binding site [chemical binding]; other site 536230000604 dimerization interface [polypeptide binding]; other site 536230000605 catalytic site [active] 536230000606 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 536230000607 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536230000608 putative metal binding site [ion binding]; other site 536230000609 Serine hydrolase; Region: Ser_hydrolase; pfam06821 536230000610 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 536230000611 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 536230000612 nudix motif; other site 536230000613 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 536230000614 Phosphoesterase family; Region: Phosphoesterase; pfam04185 536230000615 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230000616 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230000617 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230000618 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 536230000619 putative DNA binding site [nucleotide binding]; other site 536230000620 putative Zn2+ binding site [ion binding]; other site 536230000621 AsnC family; Region: AsnC_trans_reg; pfam01037 536230000622 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 536230000623 Predicted membrane protein [Function unknown]; Region: COG4541 536230000624 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 536230000625 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 536230000626 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 536230000627 Cu(I) binding site [ion binding]; other site 536230000628 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 536230000629 Kelch motif; Region: Kelch_6; pfam13964 536230000630 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 536230000631 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 536230000632 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 536230000633 dimer interface [polypeptide binding]; other site 536230000634 active site 536230000635 catalytic residue [active] 536230000636 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 536230000637 Inclusion body protein; Region: PixA; pfam12306 536230000638 Inclusion body protein; Region: PixA; pfam12306 536230000639 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 536230000640 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 536230000641 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 536230000642 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 536230000643 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 536230000644 Inward rectifier potassium channel; Region: IRK; pfam01007 536230000645 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 536230000646 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 536230000647 dimer interface [polypeptide binding]; other site 536230000648 PYR/PP interface [polypeptide binding]; other site 536230000649 TPP binding site [chemical binding]; other site 536230000650 substrate binding site [chemical binding]; other site 536230000651 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 536230000652 TPP-binding site [chemical binding]; other site 536230000653 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 536230000654 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536230000655 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 536230000656 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 536230000657 dimer interface [polypeptide binding]; other site 536230000658 Alkaline phosphatase homologues; Region: alkPPc; smart00098 536230000659 active site 536230000660 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 536230000661 Alkaline phosphatase homologues; Region: alkPPc; smart00098 536230000662 active site 536230000663 dimer interface [polypeptide binding]; other site 536230000664 CutC family; Region: CutC; cl01218 536230000665 biotin synthase; Region: bioB; TIGR00433 536230000666 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 536230000667 FeS/SAM binding site; other site 536230000668 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 536230000669 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 536230000670 AAA domain; Region: AAA_26; pfam13500 536230000671 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 536230000672 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 536230000673 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230000674 catalytic residue [active] 536230000675 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 536230000676 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 536230000677 inhibitor-cofactor binding pocket; inhibition site 536230000678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230000679 catalytic residue [active] 536230000680 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 536230000681 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 536230000682 hypothetical protein; Provisional; Region: PRK01842 536230000683 potential frameshift: common BLAST hit: gi|126440176|ref|YP_001057448.1| short chain dehydrogenase 536230000684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000686 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 536230000687 NAD(P) binding site [chemical binding]; other site 536230000688 active site 536230000689 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 536230000690 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 536230000691 dimer interface [polypeptide binding]; other site 536230000692 active site 536230000693 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 536230000694 active site clefts [active] 536230000695 zinc binding site [ion binding]; other site 536230000696 dimer interface [polypeptide binding]; other site 536230000697 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 536230000698 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 536230000699 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 536230000700 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230000701 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 536230000702 Walker A/P-loop; other site 536230000703 ATP binding site [chemical binding]; other site 536230000704 Q-loop/lid; other site 536230000705 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230000706 ABC transporter signature motif; other site 536230000707 Walker B; other site 536230000708 D-loop; other site 536230000709 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230000710 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536230000711 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 536230000712 peptide binding site [polypeptide binding]; other site 536230000713 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 536230000714 active site 536230000715 MarR family; Region: MarR_2; cl17246 536230000716 short chain dehydrogenase; Validated; Region: PRK08264 536230000717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000718 NAD(P) binding site [chemical binding]; other site 536230000719 active site 536230000720 short chain dehydrogenase; Provisional; Region: PRK07024 536230000721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230000722 NAD(P) binding site [chemical binding]; other site 536230000723 active site 536230000724 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 536230000725 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 536230000726 catalytic residues [active] 536230000727 hinge region; other site 536230000728 alpha helical domain; other site 536230000729 Sporulation related domain; Region: SPOR; pfam05036 536230000730 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 536230000731 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 536230000732 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 536230000733 active site 536230000734 HIGH motif; other site 536230000735 KMSK motif region; other site 536230000736 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 536230000737 tRNA binding surface [nucleotide binding]; other site 536230000738 anticodon binding site; other site 536230000739 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 536230000740 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 536230000741 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 536230000742 substrate binding pocket [chemical binding]; other site 536230000743 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 536230000744 B12 binding site [chemical binding]; other site 536230000745 cobalt ligand [ion binding]; other site 536230000746 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 536230000747 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 536230000748 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 536230000749 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 536230000750 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 536230000751 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536230000752 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230000753 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230000754 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 536230000755 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 536230000756 enoyl-CoA hydratase; Provisional; Region: PRK07657 536230000757 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 536230000758 substrate binding site [chemical binding]; other site 536230000759 oxyanion hole (OAH) forming residues; other site 536230000760 trimer interface [polypeptide binding]; other site 536230000761 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 536230000762 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 536230000763 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 536230000764 active site 536230000765 nucleophile elbow; other site 536230000766 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 536230000767 dinuclear metal binding motif [ion binding]; other site 536230000768 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 536230000769 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 536230000770 active site 536230000771 HIGH motif; other site 536230000772 nucleotide binding site [chemical binding]; other site 536230000773 pantothenate kinase; Reviewed; Region: PRK13328 536230000774 biotin--protein ligase; Provisional; Region: PRK06955 536230000775 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 536230000776 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536230000777 Sel1-like repeats; Region: SEL1; smart00671 536230000778 Sel1-like repeats; Region: SEL1; smart00671 536230000779 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 536230000780 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 536230000781 active site 536230000782 metal binding site [ion binding]; metal-binding site 536230000783 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 536230000784 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 536230000785 Permease; Region: Permease; pfam02405 536230000786 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 536230000787 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 536230000788 Walker A/P-loop; other site 536230000789 ATP binding site [chemical binding]; other site 536230000790 Q-loop/lid; other site 536230000791 ABC transporter signature motif; other site 536230000792 Walker B; other site 536230000793 D-loop; other site 536230000794 H-loop/switch region; other site 536230000795 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 536230000796 mce related protein; Region: MCE; pfam02470 536230000797 Protein of unknown function (DUF330); Region: DUF330; pfam03886 536230000798 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 536230000799 dimer interface [polypeptide binding]; other site 536230000800 [2Fe-2S] cluster binding site [ion binding]; other site 536230000801 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 536230000802 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 536230000803 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536230000804 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 536230000805 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 536230000806 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 536230000807 homodimer interface [polypeptide binding]; other site 536230000808 substrate-cofactor binding pocket; other site 536230000809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230000810 catalytic residue [active] 536230000811 hypothetical protein; Provisional; Region: PRK02047 536230000812 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 536230000813 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230000814 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 536230000815 dimerization interface [polypeptide binding]; other site 536230000816 substrate binding pocket [chemical binding]; other site 536230000817 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 536230000818 lipoate-protein ligase B; Provisional; Region: PRK14343 536230000819 lipoyl synthase; Provisional; Region: PRK05481 536230000820 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 536230000821 FeS/SAM binding site; other site 536230000822 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 536230000823 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 536230000824 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 536230000825 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230000826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230000827 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 536230000828 putative effector binding pocket; other site 536230000829 dimerization interface [polypeptide binding]; other site 536230000830 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 536230000831 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 536230000832 substrate binding site [chemical binding]; other site 536230000833 oxyanion hole (OAH) forming residues; other site 536230000834 trimer interface [polypeptide binding]; other site 536230000835 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536230000836 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230000837 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230000838 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 536230000839 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230000840 active site 536230000841 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 536230000842 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 536230000843 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 536230000844 active site 536230000845 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 536230000846 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536230000847 Protein of unknown function, DUF485; Region: DUF485; pfam04341 536230000848 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 536230000849 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 536230000850 Na binding site [ion binding]; other site 536230000851 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 536230000852 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536230000853 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 536230000854 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230000855 dimer interface [polypeptide binding]; other site 536230000856 phosphorylation site [posttranslational modification] 536230000857 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 536230000858 ATP binding site [chemical binding]; other site 536230000859 Mg2+ binding site [ion binding]; other site 536230000860 G-X-G motif; other site 536230000861 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230000862 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 536230000863 active site 536230000864 phosphorylation site [posttranslational modification] 536230000865 intermolecular recognition site; other site 536230000866 dimerization interface [polypeptide binding]; other site 536230000867 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230000868 Walker A motif; other site 536230000869 ATP binding site [chemical binding]; other site 536230000870 Walker B motif; other site 536230000871 arginine finger; other site 536230000872 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536230000873 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 536230000874 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536230000875 catalytic residues [active] 536230000876 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 536230000877 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536230000878 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536230000879 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 536230000880 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 536230000881 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 536230000882 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 536230000883 Membrane fusogenic activity; Region: BMFP; pfam04380 536230000884 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 536230000885 Nitrogen regulatory protein P-II; Region: P-II; smart00938 536230000886 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 536230000887 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 536230000888 Glutamate-cysteine ligase; Region: GshA; pfam08886 536230000889 glutathione synthetase; Provisional; Region: PRK05246 536230000890 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 536230000891 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 536230000892 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 536230000893 active pocket/dimerization site; other site 536230000894 active site 536230000895 phosphorylation site [posttranslational modification] 536230000896 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 536230000897 dimerization domain swap beta strand [polypeptide binding]; other site 536230000898 regulatory protein interface [polypeptide binding]; other site 536230000899 active site 536230000900 regulatory phosphorylation site [posttranslational modification]; other site 536230000901 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 536230000902 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536230000903 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536230000904 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536230000905 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 536230000906 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 536230000907 ATP binding site [chemical binding]; other site 536230000908 substrate interface [chemical binding]; other site 536230000909 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 536230000910 C-terminal peptidase (prc); Region: prc; TIGR00225 536230000911 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 536230000912 protein binding site [polypeptide binding]; other site 536230000913 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 536230000914 Catalytic dyad [active] 536230000915 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 536230000916 catalytic core [active] 536230000917 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 536230000918 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 536230000919 active site residue [active] 536230000920 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 536230000921 GSH binding site [chemical binding]; other site 536230000922 catalytic residues [active] 536230000923 preprotein translocase subunit SecB; Validated; Region: PRK05751 536230000924 SecA binding site; other site 536230000925 Preprotein binding site; other site 536230000926 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 536230000927 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 536230000928 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 536230000929 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...; Region: Macro_Appr_pase_like; cd02908 536230000930 putative ADP-ribose binding site [chemical binding]; other site 536230000931 putative active site [active] 536230000932 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 536230000933 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 536230000934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230000935 active site 536230000936 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 536230000937 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 536230000938 S-adenosylmethionine binding site [chemical binding]; other site 536230000939 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 536230000940 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 536230000941 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 536230000942 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 536230000943 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230000944 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 536230000945 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 536230000946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230000947 ligand binding site [chemical binding]; other site 536230000948 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 536230000949 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 536230000950 Subunit I/III interface [polypeptide binding]; other site 536230000951 D-pathway; other site 536230000952 Subunit I/VIIc interface [polypeptide binding]; other site 536230000953 Subunit I/IV interface [polypeptide binding]; other site 536230000954 Subunit I/II interface [polypeptide binding]; other site 536230000955 Low-spin heme (heme a) binding site [chemical binding]; other site 536230000956 Subunit I/VIIa interface [polypeptide binding]; other site 536230000957 Subunit I/VIa interface [polypeptide binding]; other site 536230000958 Dimer interface; other site 536230000959 Putative water exit pathway; other site 536230000960 Binuclear center (heme a3/CuB) [ion binding]; other site 536230000961 K-pathway; other site 536230000962 Subunit I/Vb interface [polypeptide binding]; other site 536230000963 Putative proton exit pathway; other site 536230000964 Subunit I/VIb interface; other site 536230000965 Subunit I/VIc interface [polypeptide binding]; other site 536230000966 Electron transfer pathway; other site 536230000967 Subunit I/VIIIb interface [polypeptide binding]; other site 536230000968 Subunit I/VIIb interface [polypeptide binding]; other site 536230000969 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 536230000970 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 536230000971 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 536230000972 Subunit III/VIIa interface [polypeptide binding]; other site 536230000973 Phospholipid binding site [chemical binding]; other site 536230000974 Subunit I/III interface [polypeptide binding]; other site 536230000975 Subunit III/VIb interface [polypeptide binding]; other site 536230000976 Subunit III/VIa interface; other site 536230000977 Subunit III/Vb interface [polypeptide binding]; other site 536230000978 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 536230000979 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 536230000980 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 536230000981 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 536230000982 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 536230000983 UbiA prenyltransferase family; Region: UbiA; pfam01040 536230000984 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 536230000985 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 536230000986 Cu(I) binding site [ion binding]; other site 536230000987 YCII-related domain; Region: YCII; cl00999 536230000988 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 536230000989 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 536230000990 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230000991 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230000992 dimer interface [polypeptide binding]; other site 536230000993 putative CheW interface [polypeptide binding]; other site 536230000994 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 536230000995 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 536230000996 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 536230000997 zinc binding site [ion binding]; other site 536230000998 putative ligand binding site [chemical binding]; other site 536230000999 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230001000 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 536230001001 TM-ABC transporter signature motif; other site 536230001002 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 536230001003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230001004 Walker A/P-loop; other site 536230001005 ATP binding site [chemical binding]; other site 536230001006 Q-loop/lid; other site 536230001007 ABC transporter signature motif; other site 536230001008 Walker B; other site 536230001009 D-loop; other site 536230001010 H-loop/switch region; other site 536230001011 DNA Polymerase Y-family; Region: PolY_like; cd03468 536230001012 active site 536230001013 DNA binding site [nucleotide binding] 536230001014 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 536230001015 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 536230001016 putative active site [active] 536230001017 putative PHP Thumb interface [polypeptide binding]; other site 536230001018 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 536230001019 generic binding surface II; other site 536230001020 generic binding surface I; other site 536230001021 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 536230001022 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230001023 putative di-iron ligands [ion binding]; other site 536230001024 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 536230001025 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 536230001026 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 536230001027 inhibitor-cofactor binding pocket; inhibition site 536230001028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230001029 catalytic residue [active] 536230001030 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536230001031 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536230001032 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 536230001033 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230001034 Walker A/P-loop; other site 536230001035 ATP binding site [chemical binding]; other site 536230001036 Q-loop/lid; other site 536230001037 ABC transporter signature motif; other site 536230001038 Walker B; other site 536230001039 D-loop; other site 536230001040 H-loop/switch region; other site 536230001041 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 536230001042 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536230001043 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 536230001044 S-adenosylmethionine binding site [chemical binding]; other site 536230001045 Citrate synthase; Region: Citrate_synt; pfam00285 536230001046 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 536230001047 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 536230001048 citrylCoA binding site [chemical binding]; other site 536230001049 oxalacetate binding site [chemical binding]; other site 536230001050 coenzyme A binding site [chemical binding]; other site 536230001051 catalytic triad [active] 536230001052 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 536230001053 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230001054 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230001055 active site 536230001056 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 536230001057 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 536230001058 active site 536230001059 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 536230001060 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230001061 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230001062 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230001063 acyl-activating enzyme (AAE) consensus motif; other site 536230001064 acyl-activating enzyme (AAE) consensus motif; other site 536230001065 AMP binding site [chemical binding]; other site 536230001066 active site 536230001067 CoA binding site [chemical binding]; other site 536230001068 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 536230001069 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 536230001070 dimer interface [polypeptide binding]; other site 536230001071 active site 536230001072 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536230001073 catalytic residues [active] 536230001074 substrate binding site [chemical binding]; other site 536230001075 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 536230001076 active site 536230001077 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 536230001078 dinuclear metal binding motif [ion binding]; other site 536230001079 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230001080 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 536230001081 acyl-CoA synthetase; Validated; Region: PRK09192 536230001082 acyl-activating enzyme (AAE) consensus motif; other site 536230001083 active site 536230001084 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536230001085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230001086 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 536230001087 dimerization interface [polypeptide binding]; other site 536230001088 substrate binding pocket [chemical binding]; other site 536230001089 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536230001090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230001091 DNA-binding site [nucleotide binding]; DNA binding site 536230001092 UTRA domain; Region: UTRA; pfam07702 536230001093 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 536230001094 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 536230001095 active site 536230001096 dimer interface [polypeptide binding]; other site 536230001097 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 536230001098 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 536230001099 dimer interface [polypeptide binding]; other site 536230001100 active site 536230001101 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 536230001102 dimer interface [polypeptide binding]; other site 536230001103 active site 536230001104 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 536230001105 HPr interaction site; other site 536230001106 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536230001107 active site 536230001108 phosphorylation site [posttranslational modification] 536230001109 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 536230001110 dimerization domain swap beta strand [polypeptide binding]; other site 536230001111 regulatory protein interface [polypeptide binding]; other site 536230001112 active site 536230001113 regulatory phosphorylation site [posttranslational modification]; other site 536230001114 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 536230001115 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536230001116 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536230001117 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536230001118 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536230001119 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 536230001120 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 family...; Region: PTS_IIB_glc; cd00212 536230001121 active site turn [active] 536230001122 phosphorylation site [posttranslational modification] 536230001123 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 536230001124 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 536230001125 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 536230001126 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 536230001127 active site 536230001128 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 536230001129 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 536230001130 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 536230001131 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 536230001132 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 536230001133 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 536230001134 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 536230001135 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230001136 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230001137 DNA binding residues [nucleotide binding] 536230001138 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 536230001139 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 536230001140 SnoaL-like domain; Region: SnoaL_3; pfam13474 536230001141 2-isopropylmalate synthase; Validated; Region: PRK03739 536230001142 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 536230001143 active site 536230001144 catalytic residues [active] 536230001145 metal binding site [ion binding]; metal-binding site 536230001146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230001147 Coenzyme A binding pocket [chemical binding]; other site 536230001148 glycosyl transferase family protein; Provisional; Region: PRK08136 536230001149 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536230001150 Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; smart00926 536230001151 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 536230001152 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 536230001153 molybdopterin cofactor binding site; other site 536230001154 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 536230001155 molybdopterin cofactor binding site; other site 536230001156 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536230001157 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 536230001158 [2Fe-2S] cluster binding site [ion binding]; other site 536230001159 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 536230001160 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536230001161 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536230001162 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536230001163 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230001164 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536230001165 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 536230001166 C-terminal domain interface [polypeptide binding]; other site 536230001167 GSH binding site (G-site) [chemical binding]; other site 536230001168 putative dimer interface [polypeptide binding]; other site 536230001169 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 536230001170 dimer interface [polypeptide binding]; other site 536230001171 N-terminal domain interface [polypeptide binding]; other site 536230001172 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 536230001173 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 536230001174 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 536230001175 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 536230001176 P loop; other site 536230001177 GTP binding site [chemical binding]; other site 536230001178 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 536230001179 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 536230001180 S-adenosylmethionine binding site [chemical binding]; other site 536230001181 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 536230001182 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 536230001183 active site 536230001184 (T/H)XGH motif; other site 536230001185 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 536230001186 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 536230001187 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 536230001188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230001189 homodimer interface [polypeptide binding]; other site 536230001190 catalytic residue [active] 536230001191 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 536230001192 putative active site [active] 536230001193 catalytic residue [active] 536230001194 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 536230001195 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 536230001196 5S rRNA interface [nucleotide binding]; other site 536230001197 CTC domain interface [polypeptide binding]; other site 536230001198 L16 interface [polypeptide binding]; other site 536230001199 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 536230001200 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 536230001201 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230001202 active site 536230001203 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 536230001204 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 536230001205 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 536230001206 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 536230001207 binding surface 536230001208 TPR motif; other site 536230001209 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 536230001210 binding surface 536230001211 TPR motif; other site 536230001212 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 536230001213 binding surface 536230001214 TPR motif; other site 536230001215 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 536230001216 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 536230001217 DNA binding site [nucleotide binding] 536230001218 catalytic residue [active] 536230001219 H2TH interface [polypeptide binding]; other site 536230001220 putative catalytic residues [active] 536230001221 turnover-facilitating residue; other site 536230001222 intercalation triad [nucleotide binding]; other site 536230001223 8OG recognition residue [nucleotide binding]; other site 536230001224 putative reading head residues; other site 536230001225 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 536230001226 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 536230001227 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 536230001228 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230001229 minor groove reading motif; other site 536230001230 helix-hairpin-helix signature motif; other site 536230001231 active site 536230001232 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 536230001233 DNA binding and oxoG recognition site [nucleotide binding] 536230001234 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 536230001235 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 536230001236 AAA domain; Region: AAA_18; pfam13238 536230001237 HPr kinase/phosphorylase; Provisional; Region: PRK05428 536230001238 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 536230001239 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 536230001240 Hpr binding site; other site 536230001241 active site 536230001242 homohexamer subunit interaction site [polypeptide binding]; other site 536230001243 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 536230001244 active site 536230001245 phosphorylation site [posttranslational modification] 536230001246 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 536230001247 30S subunit binding site; other site 536230001248 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 536230001249 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 536230001250 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 536230001251 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 536230001252 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 536230001253 Walker A/P-loop; other site 536230001254 ATP binding site [chemical binding]; other site 536230001255 Q-loop/lid; other site 536230001256 ABC transporter signature motif; other site 536230001257 Walker B; other site 536230001258 D-loop; other site 536230001259 H-loop/switch region; other site 536230001260 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 536230001261 OstA-like protein; Region: OstA; pfam03968 536230001262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 536230001263 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 536230001264 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 536230001265 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 536230001266 active site 536230001267 motif I; other site 536230001268 motif II; other site 536230001269 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 536230001270 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 536230001271 putative active site [active] 536230001272 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 536230001273 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 536230001274 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 536230001275 TrkA-N domain; Region: TrkA_N; pfam02254 536230001276 TrkA-C domain; Region: TrkA_C; pfam02080 536230001277 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230001278 active site 536230001279 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 536230001280 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 536230001281 nudix motif; other site 536230001282 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 536230001283 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 536230001284 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 536230001285 putative active site [active] 536230001286 putative substrate binding site [chemical binding]; other site 536230001287 putative cosubstrate binding site; other site 536230001288 catalytic site [active] 536230001289 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 536230001290 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 536230001291 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536230001292 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536230001293 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 536230001294 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 536230001295 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230001296 putative substrate translocation pore; other site 536230001297 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 536230001298 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 536230001299 dimer interface [polypeptide binding]; other site 536230001300 ssDNA binding site [nucleotide binding]; other site 536230001301 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536230001302 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 536230001303 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 536230001304 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 536230001305 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 536230001306 Family description; Region: VCBS; pfam13517 536230001307 Family description; Region: VCBS; pfam13517 536230001308 Family description; Region: VCBS; pfam13517 536230001309 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 536230001310 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 536230001311 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536230001312 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536230001313 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536230001314 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 536230001315 phosphopeptide binding site; other site 536230001316 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 536230001317 active site 536230001318 ATP binding site [chemical binding]; other site 536230001319 substrate binding site [chemical binding]; other site 536230001320 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 536230001321 activation loop (A-loop); other site 536230001322 cyclase homology domain; Region: CHD; cd07302 536230001323 dimer interface [polypeptide binding]; other site 536230001324 nucleotidyl binding site; other site 536230001325 metal binding site [ion binding]; metal-binding site 536230001326 AAA ATPase domain; Region: AAA_16; pfam13191 536230001327 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 536230001328 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 536230001329 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 536230001330 YcaO-like family; Region: YcaO; pfam02624 536230001331 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 536230001332 aldolase II superfamily protein; Provisional; Region: PRK07044 536230001333 intersubunit interface [polypeptide binding]; other site 536230001334 active site 536230001335 Zn2+ binding site [ion binding]; other site 536230001336 PAS domain; Region: PAS; smart00091 536230001337 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536230001338 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230001339 metal binding site [ion binding]; metal-binding site 536230001340 active site 536230001341 I-site; other site 536230001342 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 536230001343 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 536230001344 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536230001345 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230001346 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 536230001347 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 536230001348 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 536230001349 Substrate binding site; other site 536230001350 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 536230001351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536230001352 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230001353 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 536230001354 putative ADP-binding pocket [chemical binding]; other site 536230001355 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 536230001356 active site 536230001357 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230001358 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230001359 Walker A motif; other site 536230001360 ATP binding site [chemical binding]; other site 536230001361 Walker B motif; other site 536230001362 arginine finger; other site 536230001363 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 536230001364 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 536230001365 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 536230001366 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 536230001367 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-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 536230001368 dimer interface [polypeptide binding]; other site 536230001369 motif 1; other site 536230001370 active site 536230001371 motif 2; other site 536230001372 motif 3; other site 536230001373 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230001374 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230001375 active site 536230001376 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230001377 active site 536230001378 acyl carrier protein; Provisional; Region: PRK07081 536230001379 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230001380 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 536230001381 ligand binding site [chemical binding]; other site 536230001382 flexible hinge region; other site 536230001383 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 536230001384 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230001385 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 536230001386 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 536230001387 non-specific DNA interactions [nucleotide binding]; other site 536230001388 DNA binding site [nucleotide binding] 536230001389 sequence specific DNA binding site [nucleotide binding]; other site 536230001390 putative cAMP binding site [chemical binding]; other site 536230001391 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 536230001392 Bacterial sugar transferase; Region: Bac_transf; pfam02397 536230001393 polysaccharide export protein Wza; Provisional; Region: PRK15078 536230001394 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536230001395 SLBB domain; Region: SLBB; pfam10531 536230001396 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 536230001397 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 536230001398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230001399 CHRD domain; Region: CHRD; pfam07452 536230001400 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536230001401 EcsC protein family; Region: EcsC; pfam12787 536230001402 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 536230001403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230001404 putative substrate translocation pore; other site 536230001405 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 536230001406 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230001407 MarR family; Region: MarR; pfam01047 536230001408 MarR family; Region: MarR_2; cl17246 536230001409 intracellular protease, PfpI family; Region: PfpI; TIGR01382 536230001410 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 536230001411 conserved cys residue [active] 536230001412 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 536230001413 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 536230001414 dimer interface [polypeptide binding]; other site 536230001415 active site 536230001416 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536230001417 substrate binding site [chemical binding]; other site 536230001418 catalytic residue [active] 536230001419 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536230001420 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536230001421 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 536230001422 putative active site [active] 536230001423 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 536230001424 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 536230001425 active site 536230001426 putative substrate binding pocket [chemical binding]; other site 536230001427 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 536230001428 homotrimer interaction site [polypeptide binding]; other site 536230001429 putative active site [active] 536230001430 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 536230001431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 536230001432 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 536230001433 threonine dehydratase; Reviewed; Region: PRK09224 536230001434 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 536230001435 tetramer interface [polypeptide binding]; other site 536230001436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230001437 catalytic residue [active] 536230001438 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 536230001439 putative Ile/Val binding site [chemical binding]; other site 536230001440 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 536230001441 putative Ile/Val binding site [chemical binding]; other site 536230001442 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 536230001443 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230001444 FAD binding domain; Region: FAD_binding_4; pfam01565 536230001445 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230001446 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 536230001447 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 536230001448 Cysteine-rich domain; Region: CCG; pfam02754 536230001449 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 536230001450 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 536230001451 nucleotide binding site/active site [active] 536230001452 HIT family signature motif; other site 536230001453 catalytic residue [active] 536230001454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 536230001455 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 536230001456 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 536230001457 S-adenosylmethionine binding site [chemical binding]; other site 536230001458 Tim44-like domain; Region: Tim44; pfam04280 536230001459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 536230001460 SCP-2 sterol transfer family; Region: SCP2; pfam02036 536230001461 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 536230001462 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 536230001463 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 536230001464 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536230001465 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 536230001466 Uncharacterized conserved protein [Function unknown]; Region: COG2928 536230001467 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 536230001468 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 536230001469 dimer interface [polypeptide binding]; other site 536230001470 anticodon binding site; other site 536230001471 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 536230001472 homodimer interface [polypeptide binding]; other site 536230001473 motif 1; other site 536230001474 active site 536230001475 motif 2; other site 536230001476 GAD domain; Region: GAD; pfam02938 536230001477 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 536230001478 motif 3; other site 536230001479 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 536230001480 nudix motif; other site 536230001481 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 536230001482 PLD-like domain; Region: PLDc_2; pfam13091 536230001483 putative active site [active] 536230001484 catalytic site [active] 536230001485 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 536230001486 PLD-like domain; Region: PLDc_2; pfam13091 536230001487 putative active site [active] 536230001488 catalytic site [active] 536230001489 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230001490 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230001491 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 536230001492 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 536230001493 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 536230001494 FAD binding site [chemical binding]; other site 536230001495 substrate binding site [chemical binding]; other site 536230001496 catalytic residues [active] 536230001497 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 536230001498 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 536230001499 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536230001500 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230001501 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 536230001502 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 536230001503 substrate binding site [chemical binding]; other site 536230001504 oxyanion hole (OAH) forming residues; other site 536230001505 trimer interface [polypeptide binding]; other site 536230001506 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 536230001507 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 536230001508 dimer interface [polypeptide binding]; other site 536230001509 active site 536230001510 enoyl-CoA hydratase; Provisional; Region: PRK06688 536230001511 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 536230001512 substrate binding site [chemical binding]; other site 536230001513 oxyanion hole (OAH) forming residues; other site 536230001514 trimer interface [polypeptide binding]; other site 536230001515 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 536230001516 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 536230001517 conserved hypothetical protein; Region: nitr_red_assoc; TIGR02664 536230001518 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 536230001519 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 536230001520 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536230001521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230001522 Walker A/P-loop; other site 536230001523 ATP binding site [chemical binding]; other site 536230001524 Q-loop/lid; other site 536230001525 ABC transporter signature motif; other site 536230001526 Walker B; other site 536230001527 D-loop; other site 536230001528 H-loop/switch region; other site 536230001529 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 536230001530 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 536230001531 Substrate binding site; other site 536230001532 metal-binding site 536230001533 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 536230001534 Phosphotransferase enzyme family; Region: APH; pfam01636 536230001535 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 536230001536 Organic solvent tolerance protein; Region: OstA_C; pfam04453 536230001537 SurA N-terminal domain; Region: SurA_N; pfam09312 536230001538 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 536230001539 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536230001540 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536230001541 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 536230001542 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 536230001543 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 536230001544 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 536230001545 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536230001546 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 536230001547 dimer interface [polypeptide binding]; other site 536230001548 active site 536230001549 metal binding site [ion binding]; metal-binding site 536230001550 glutathione binding site [chemical binding]; other site 536230001551 Protein of unknown function DUF45; Region: DUF45; pfam01863 536230001552 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 536230001553 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536230001554 putative acyl-acceptor binding pocket; other site 536230001555 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 536230001556 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 536230001557 active site 536230001558 motif I; other site 536230001559 motif II; other site 536230001560 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 536230001561 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 536230001562 dimer interface [polypeptide binding]; other site 536230001563 motif 1; other site 536230001564 active site 536230001565 motif 2; other site 536230001566 motif 3; other site 536230001567 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 536230001568 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 536230001569 putative active site [active] 536230001570 catalytic triad [active] 536230001571 putative dimer interface [polypeptide binding]; other site 536230001572 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 536230001573 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 536230001574 Transporter associated domain; Region: CorC_HlyC; smart01091 536230001575 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 536230001576 putative active site pocket [active] 536230001577 dimerization interface [polypeptide binding]; other site 536230001578 putative catalytic residue [active] 536230001579 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 536230001580 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 536230001581 PhoH-like protein; Region: PhoH; pfam02562 536230001582 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 536230001583 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536230001584 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 536230001585 FeS/SAM binding site; other site 536230001586 TRAM domain; Region: TRAM; pfam01938 536230001587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230001588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230001589 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 536230001590 putative effector binding pocket; other site 536230001591 dimerization interface [polypeptide binding]; other site 536230001592 MFS transport protein AraJ; Provisional; Region: PRK10091 536230001593 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 536230001594 putative substrate translocation pore; other site 536230001595 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536230001596 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 536230001597 non-specific DNA binding site [nucleotide binding]; other site 536230001598 salt bridge; other site 536230001599 sequence-specific DNA binding site [nucleotide binding]; other site 536230001600 Cupin domain; Region: Cupin_2; pfam07883 536230001601 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 536230001602 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 536230001603 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536230001604 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 536230001605 motif II; other site 536230001606 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536230001607 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 536230001608 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 536230001609 active site 536230001610 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 536230001611 dimer interface [polypeptide binding]; other site 536230001612 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 536230001613 Ligand Binding Site [chemical binding]; other site 536230001614 Molecular Tunnel; other site 536230001615 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 536230001616 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 536230001617 hinge; other site 536230001618 active site 536230001619 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 536230001620 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...; Region: EPT_RTPC-like; cl00288 536230001621 putative active site [active] 536230001622 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 536230001623 homotrimer interaction site [polypeptide binding]; other site 536230001624 putative active site [active] 536230001625 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 536230001626 amphipathic channel; other site 536230001627 Asn-Pro-Ala signature motifs; other site 536230001628 glycerol kinase; Provisional; Region: glpK; PRK00047 536230001629 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 536230001630 N- and C-terminal domain interface [polypeptide binding]; other site 536230001631 active site 536230001632 MgATP binding site [chemical binding]; other site 536230001633 catalytic site [active] 536230001634 metal binding site [ion binding]; metal-binding site 536230001635 glycerol binding site [chemical binding]; other site 536230001636 homotetramer interface [polypeptide binding]; other site 536230001637 homodimer interface [polypeptide binding]; other site 536230001638 FBP binding site [chemical binding]; other site 536230001639 protein IIAGlc interface [polypeptide binding]; other site 536230001640 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 536230001641 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536230001642 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536230001643 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536230001644 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 536230001645 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 536230001646 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 536230001647 dinuclear metal binding motif [ion binding]; other site 536230001648 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 536230001649 ATP binding site [chemical binding]; other site 536230001650 Mg++ binding site [ion binding]; other site 536230001651 motif III; other site 536230001652 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 536230001653 nucleotide binding region [chemical binding]; other site 536230001654 ATP-binding site [chemical binding]; other site 536230001655 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230001656 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230001657 Cytochrome c; Region: Cytochrom_C; pfam00034 536230001658 Cytochrome c; Region: Cytochrom_C; cl11414 536230001659 Cytochrome c; Region: Cytochrom_C; cl11414 536230001660 Copper resistance protein D; Region: CopD; pfam05425 536230001661 galactonate dehydratase; Provisional; Region: PRK14017 536230001662 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 536230001663 putative active site pocket [active] 536230001664 putative metal binding site [ion binding]; other site 536230001665 Uncharacterized conserved protein [Function unknown]; Region: COG3791 536230001666 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 536230001667 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230001668 active site 536230001669 metal binding site [ion binding]; metal-binding site 536230001670 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 536230001671 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 536230001672 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 536230001673 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 536230001674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230001675 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 536230001676 linker region; other site 536230001677 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 536230001678 ATP binding site [chemical binding]; other site 536230001679 Mg2+ binding site [ion binding]; other site 536230001680 G-X-G motif; other site 536230001681 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 536230001682 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 536230001683 active site 536230001684 phosphorylation site [posttranslational modification] 536230001685 intermolecular recognition site; other site 536230001686 dimerization interface [polypeptide binding]; other site 536230001687 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536230001688 Zn2+ binding site [ion binding]; other site 536230001689 Mg2+ binding site [ion binding]; other site 536230001690 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 536230001691 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 536230001692 PAS domain; Region: PAS_9; pfam13426 536230001693 putative active site [active] 536230001694 heme pocket [chemical binding]; other site 536230001695 HAMP domain; Region: HAMP; pfam00672 536230001696 dimerization interface [polypeptide binding]; other site 536230001697 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230001698 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230001699 dimer interface [polypeptide binding]; other site 536230001700 putative CheW interface [polypeptide binding]; other site 536230001701 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230001702 FAD binding domain; Region: FAD_binding_4; pfam01565 536230001703 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 536230001704 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 536230001705 dimerization interface [polypeptide binding]; other site 536230001706 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 536230001707 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 536230001708 active site residue [active] 536230001709 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230001710 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536230001711 Walker A/P-loop; other site 536230001712 ATP binding site [chemical binding]; other site 536230001713 Q-loop/lid; other site 536230001714 ABC transporter signature motif; other site 536230001715 Walker B; other site 536230001716 D-loop; other site 536230001717 H-loop/switch region; other site 536230001718 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 536230001719 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 536230001720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230001721 dimer interface [polypeptide binding]; other site 536230001722 conserved gate region; other site 536230001723 putative PBP binding loops; other site 536230001724 ABC-ATPase subunit interface; other site 536230001725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230001726 dimer interface [polypeptide binding]; other site 536230001727 ABC-ATPase subunit interface; other site 536230001728 putative PBP binding loops; other site 536230001729 Erythromycin esterase; Region: Erythro_esteras; pfam05139 536230001730 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 536230001731 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, reaction...; Region: NAPRTase_A; cd01570 536230001732 active site 536230001733 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230001734 active site 536230001735 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 536230001736 Transglycosylase; Region: Transgly; cl17702 536230001737 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536230001738 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230001739 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230001740 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 536230001741 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 536230001742 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 536230001743 D-pathway; other site 536230001744 Putative ubiquinol binding site [chemical binding]; other site 536230001745 Low-spin heme (heme b) binding site [chemical binding]; other site 536230001746 Putative water exit pathway; other site 536230001747 Binuclear center (heme o3/CuB) [ion binding]; other site 536230001748 K-pathway; other site 536230001749 Putative proton exit pathway; other site 536230001750 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 membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 536230001751 Subunit I/III interface [polypeptide binding]; other site 536230001752 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 536230001753 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 536230001754 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 536230001755 Cytochrome c; Region: Cytochrom_C; pfam00034 536230001756 thiamine pyrophosphate protein; Provisional; Region: PRK08273 536230001757 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 536230001758 PYR/PP interface [polypeptide binding]; other site 536230001759 dimer interface [polypeptide binding]; other site 536230001760 tetramer interface [polypeptide binding]; other site 536230001761 TPP binding site [chemical binding]; other site 536230001762 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230001763 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 536230001764 TPP-binding site [chemical binding]; other site 536230001765 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 536230001766 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 536230001767 metal binding site [ion binding]; metal-binding site 536230001768 substrate binding pocket [chemical binding]; other site 536230001769 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 536230001770 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 536230001771 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230001772 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 536230001773 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 536230001774 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 536230001775 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 536230001776 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...; Region: Ntn_PGA_like; cd03747 536230001777 active site 536230001778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230001779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230001780 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 536230001781 putative effector binding pocket; other site 536230001782 putative dimerization interface [polypeptide binding]; other site 536230001783 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230001784 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230001785 dimer interface [polypeptide binding]; other site 536230001786 phosphorylation site [posttranslational modification] 536230001787 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 536230001788 ATP binding site [chemical binding]; other site 536230001789 Mg2+ binding site [ion binding]; other site 536230001790 G-X-G motif; other site 536230001791 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 536230001792 Response regulator receiver domain; Region: Response_reg; pfam00072 536230001793 active site 536230001794 phosphorylation site [posttranslational modification] 536230001795 intermolecular recognition site; other site 536230001796 dimerization interface [polypeptide binding]; other site 536230001797 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 536230001798 BetR domain; Region: BetR; pfam08667 536230001799 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 536230001800 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 536230001801 active site 536230001802 phosphorylation site [posttranslational modification] 536230001803 intermolecular recognition site; other site 536230001804 dimerization interface [polypeptide binding]; other site 536230001805 Transposase domain (DUF772); Region: DUF772; pfam05598 536230001806 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536230001807 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536230001808 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 536230001809 active site 536230001810 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 536230001811 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 536230001812 motif II; other site 536230001813 Helix-turn-helix domain; Region: HTH_36; pfam13730 536230001814 integrase; Provisional; Region: int; PHA02601 536230001815 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 536230001816 active site 536230001817 DNA binding site [nucleotide binding] 536230001818 Int/Topo IB signature motif; other site 536230001819 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 536230001820 putative substrate translocation pore; other site 536230001821 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 536230001822 HAMP domain; Region: HAMP; pfam00672 536230001823 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230001824 dimer interface [polypeptide binding]; other site 536230001825 phosphorylation site [posttranslational modification] 536230001826 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 536230001827 ATP binding site [chemical binding]; other site 536230001828 Mg2+ binding site [ion binding]; other site 536230001829 G-X-G motif; other site 536230001830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230001831 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 536230001832 active site 536230001833 phosphorylation site [posttranslational modification] 536230001834 intermolecular recognition site; other site 536230001835 dimerization interface [polypeptide binding]; other site 536230001836 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230001837 DNA binding site [nucleotide binding] 536230001838 recombinase A; Provisional; Region: recA; PRK09354 536230001839 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 536230001840 hexamer interface [polypeptide binding]; other site 536230001841 Walker A motif; other site 536230001842 ATP binding site [chemical binding]; other site 536230001843 Walker B motif; other site 536230001844 recombination regulator RecX; Provisional; Region: recX; PRK14136 536230001845 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 536230001846 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 536230001847 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 536230001848 CoA-ligase; Region: Ligase_CoA; pfam00549 536230001849 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 536230001850 CoA binding domain; Region: CoA_binding; smart00881 536230001851 CoA-ligase; Region: Ligase_CoA; pfam00549 536230001852 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 536230001853 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 536230001854 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 536230001855 O-Antigen ligase; Region: Wzy_C; pfam04932 536230001856 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 536230001857 hypothetical protein; Provisional; Region: PRK11667 536230001858 Gram-negative bacterial tonB protein; Region: TonB; cl10048 536230001859 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 536230001860 trimer interface [polypeptide binding]; other site 536230001861 dimer interface [polypeptide binding]; other site 536230001862 putative active site [active] 536230001863 Peptidase family M48; Region: Peptidase_M48; pfam01435 536230001864 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 536230001865 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 536230001866 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 536230001867 SnoaL-like domain; Region: SnoaL_3; pfam13474 536230001868 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230001869 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 536230001870 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 536230001871 putative active site [active] 536230001872 Zinc-finger domain; Region: zf-CHCC; cl01821 536230001873 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 536230001874 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 536230001875 homodimer interface [polypeptide binding]; other site 536230001876 substrate-cofactor binding pocket; other site 536230001877 catalytic residue [active] 536230001878 AzlC protein; Region: AzlC; cl00570 536230001879 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 536230001880 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 536230001881 Phosphoglycerate kinase; Region: PGK; pfam00162 536230001882 substrate binding site [chemical binding]; other site 536230001883 hinge regions; other site 536230001884 ADP binding site [chemical binding]; other site 536230001885 catalytic site [active] 536230001886 pyruvate kinase; Provisional; Region: PRK05826 536230001887 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 536230001888 domain interfaces; other site 536230001889 active site 536230001890 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 536230001891 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 536230001892 intersubunit interface [polypeptide binding]; other site 536230001893 active site 536230001894 zinc binding site [ion binding]; other site 536230001895 Na+ binding site [ion binding]; other site 536230001896 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 536230001897 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 536230001898 ATP binding site [chemical binding]; other site 536230001899 active site 536230001900 substrate binding site [chemical binding]; other site 536230001901 AIR carboxylase; Region: AIRC; pfam00731 536230001902 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 536230001903 ATP-grasp domain; Region: ATP-grasp; pfam02222 536230001904 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 536230001905 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 536230001906 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 536230001907 active site 536230001908 catalytic triad [active] 536230001909 oxyanion hole [active] 536230001910 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 536230001911 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 536230001912 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 536230001913 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 536230001914 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 536230001915 active site 536230001916 phosphorylation site [posttranslational modification] 536230001917 intermolecular recognition site; other site 536230001918 dimerization interface [polypeptide binding]; other site 536230001919 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230001920 DNA binding site [nucleotide binding] 536230001921 sensor protein QseC; Provisional; Region: PRK10337 536230001922 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 536230001923 ATP binding site [chemical binding]; other site 536230001924 Mg2+ binding site [ion binding]; other site 536230001925 G-X-G motif; other site 536230001926 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 536230001927 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536230001928 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230001929 protein binding site [polypeptide binding]; other site 536230001930 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230001931 protein binding site [polypeptide binding]; other site 536230001932 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 536230001933 Domain of unknown function (DUF427); Region: DUF427; pfam04248 536230001934 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 536230001935 hydrophobic ligand binding site; other site 536230001936 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 536230001937 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230001938 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 536230001939 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 536230001940 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230001941 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230001942 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 536230001943 Protein export membrane protein; Region: SecD_SecF; cl14618 536230001944 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 536230001945 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 536230001946 xanthine permease; Region: pbuX; TIGR03173 536230001947 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 536230001948 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 536230001949 nucleotide binding site [chemical binding]; other site 536230001950 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230001951 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 536230001952 conserved cys residue [active] 536230001953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230001954 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230001955 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 536230001956 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 536230001957 substrate binding site [chemical binding]; other site 536230001958 catalytic Zn binding site [ion binding]; other site 536230001959 NAD binding site [chemical binding]; other site 536230001960 structural Zn binding site [ion binding]; other site 536230001961 dimer interface [polypeptide binding]; other site 536230001962 S-formylglutathione hydrolase; Region: PLN02442 536230001963 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 536230001964 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 536230001965 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 536230001966 dimer interface [polypeptide binding]; other site 536230001967 putative PBP binding regions; other site 536230001968 ABC-ATPase subunit interface; other site 536230001969 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 536230001970 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 536230001971 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 536230001972 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 536230001973 metal binding site [ion binding]; metal-binding site 536230001974 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536230001975 metal binding site 2 [ion binding]; metal-binding site 536230001976 putative DNA binding helix; other site 536230001977 metal binding site 1 [ion binding]; metal-binding site 536230001978 dimer interface [polypeptide binding]; other site 536230001979 structural Zn2+ binding site [ion binding]; other site 536230001980 sorbitol dehydrogenase; Provisional; Region: PRK07067 536230001981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230001982 NAD(P) binding site [chemical binding]; other site 536230001983 active site 536230001984 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230001985 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 536230001986 substrate binding site [chemical binding]; other site 536230001987 ATP binding site [chemical binding]; other site 536230001988 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 536230001989 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 536230001990 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 536230001991 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 536230001992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230001993 dimer interface [polypeptide binding]; other site 536230001994 conserved gate region; other site 536230001995 putative PBP binding loops; other site 536230001996 ABC-ATPase subunit interface; other site 536230001997 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 536230001998 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230001999 dimer interface [polypeptide binding]; other site 536230002000 conserved gate region; other site 536230002001 putative PBP binding loops; other site 536230002002 ABC-ATPase subunit interface; other site 536230002003 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 536230002004 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536230002005 active site 536230002006 motif I; other site 536230002007 motif II; other site 536230002008 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 536230002009 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 536230002010 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 536230002011 Walker A/P-loop; other site 536230002012 ATP binding site [chemical binding]; other site 536230002013 Q-loop/lid; other site 536230002014 ABC transporter signature motif; other site 536230002015 Walker B; other site 536230002016 D-loop; other site 536230002017 H-loop/switch region; other site 536230002018 TOBE domain; Region: TOBE; pfam03459 536230002019 TOBE domain; Region: TOBE_2; pfam08402 536230002020 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 536230002021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002023 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 536230002024 putative effector binding pocket; other site 536230002025 putative dimerization interface [polypeptide binding]; other site 536230002026 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 536230002027 Beta-lactamase; Region: Beta-lactamase; pfam00144 536230002028 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 536230002029 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 536230002030 putative substrate translocation pore; other site 536230002031 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 536230002032 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 536230002033 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 536230002034 N- and C-terminal domain interface [polypeptide binding]; other site 536230002035 D-xylulose kinase; Region: XylB; TIGR01312 536230002036 active site 536230002037 MgATP binding site [chemical binding]; other site 536230002038 catalytic site [active] 536230002039 metal binding site [ion binding]; metal-binding site 536230002040 xylulose binding site [chemical binding]; other site 536230002041 homodimer interface [polypeptide binding]; other site 536230002042 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 536230002043 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 536230002044 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 536230002045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002047 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 536230002048 dimerization interface [polypeptide binding]; other site 536230002049 benzoylformate decarboxylase; Reviewed; Region: PRK07092 536230002050 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230002051 PYR/PP interface [polypeptide binding]; other site 536230002052 dimer interface [polypeptide binding]; other site 536230002053 TPP binding site [chemical binding]; other site 536230002054 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230002055 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 536230002056 TPP-binding site [chemical binding]; other site 536230002057 dimer interface [polypeptide binding]; other site 536230002058 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 536230002059 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 536230002060 NAD(P) binding site [chemical binding]; other site 536230002061 catalytic residues [active] 536230002062 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 536230002063 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 536230002064 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536230002065 benzoate transport; Region: 2A0115; TIGR00895 536230002066 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 536230002067 putative substrate translocation pore; other site 536230002068 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 536230002069 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 536230002070 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 536230002071 kynureninase; Region: kynureninase; TIGR01814 536230002072 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230002073 catalytic residue [active] 536230002074 arylformamidase; Region: trp_arylform; TIGR03035 536230002075 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230002076 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 536230002077 putative DNA binding site [nucleotide binding]; other site 536230002078 putative Zn2+ binding site [ion binding]; other site 536230002079 AsnC family; Region: AsnC_trans_reg; pfam01037 536230002080 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 536230002081 methionine sulfoxide reductase A; Provisional; Region: PRK14054 536230002082 Protein of unknown function DUF72; Region: DUF72; pfam01904 536230002083 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 536230002084 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 536230002085 S-adenosylmethionine binding site [chemical binding]; other site 536230002086 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 536230002087 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 536230002088 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 536230002089 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 536230002090 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 536230002091 putative ATP binding site [chemical binding]; other site 536230002092 putative substrate interface [chemical binding]; other site 536230002093 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 536230002094 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 536230002095 catalytic residues [active] 536230002096 Pirin-related protein [General function prediction only]; Region: COG1741 536230002097 Pirin; Region: Pirin; pfam02678 536230002098 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 536230002099 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 536230002100 EamA-like transporter family; Region: EamA; pfam00892 536230002101 AMIN domain; Region: AMIN; pfam11741 536230002102 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 536230002103 active site 536230002104 metal binding site [ion binding]; metal-binding site 536230002105 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 536230002106 epoxyqueuosine reductase; Region: TIGR00276 536230002107 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 536230002108 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 536230002109 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 536230002110 DNA binding site [nucleotide binding] 536230002111 active site 536230002112 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 536230002113 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 536230002114 active site 536230002115 Int/Topo IB signature motif; other site 536230002116 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 536230002117 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230002118 acyl-activating enzyme (AAE) consensus motif; other site 536230002119 AMP binding site [chemical binding]; other site 536230002120 active site 536230002121 CoA binding site [chemical binding]; other site 536230002122 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 536230002123 putative deacylase active site [active] 536230002124 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 536230002125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 536230002126 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 536230002127 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 536230002128 FAD binding domain; Region: FAD_binding_4; pfam01565 536230002129 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 536230002130 ornithine carbamoyltransferase; Provisional; Region: PRK00779 536230002131 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536230002132 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536230002133 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 536230002134 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 536230002135 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 536230002136 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 536230002137 Uncharacterized conserved protein [Function unknown]; Region: COG2912 536230002138 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 536230002139 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 536230002140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002141 NAD(P) binding site [chemical binding]; other site 536230002142 active site 536230002143 adenylate kinase; Reviewed; Region: adk; PRK00279 536230002144 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 536230002145 AMP-binding site [chemical binding]; other site 536230002146 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 536230002147 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 536230002148 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 536230002149 Ligand binding site; other site 536230002150 oligomer interface; other site 536230002151 Uncharacterized conserved protein [Function unknown]; Region: COG2835 536230002152 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 536230002153 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 536230002154 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 536230002155 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 536230002156 generic binding surface II; other site 536230002157 generic binding surface I; other site 536230002158 superoxide dismutase; Provisional; Region: PRK10543 536230002159 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 536230002160 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 536230002161 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 536230002162 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 536230002163 Chromate transporter; Region: Chromate_transp; pfam02417 536230002164 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230002165 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 536230002166 ligand binding site [chemical binding]; other site 536230002167 flexible hinge region; other site 536230002168 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 536230002169 putative switch regulator; other site 536230002170 non-specific DNA interactions [nucleotide binding]; other site 536230002171 DNA binding site [nucleotide binding] 536230002172 sequence specific DNA binding site [nucleotide binding]; other site 536230002173 putative cAMP binding site [chemical binding]; other site 536230002174 Protein of unknown function (DUF962); Region: DUF962; cl01879 536230002175 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 536230002176 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 536230002177 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536230002178 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 536230002179 S-adenosylmethionine binding site [chemical binding]; other site 536230002180 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 536230002181 putative transporter; Provisional; Region: PRK10504 536230002182 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 536230002183 putative substrate translocation pore; other site 536230002184 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 536230002185 Helix-turn-helix domain; Region: HTH_17; pfam12728 536230002186 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 536230002187 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 glyoxylate...; Region: citrate_synt_like_2; cd06102 536230002188 dimer interface [polypeptide binding]; other site 536230002189 active site 536230002190 oxalacetate/citrate binding site [chemical binding]; other site 536230002191 citrylCoA binding site [chemical binding]; other site 536230002192 coenzyme A binding site [chemical binding]; other site 536230002193 catalytic triad [active] 536230002194 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536230002195 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230002196 DNA-binding site [nucleotide binding]; DNA binding site 536230002197 UTRA domain; Region: UTRA; pfam07702 536230002198 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 536230002199 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536230002200 active site 536230002201 catalytic tetrad [active] 536230002202 elongation factor G; Reviewed; Region: PRK00007 536230002203 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 536230002204 G1 box; other site 536230002205 putative GEF interaction site [polypeptide binding]; other site 536230002206 GTP/Mg2+ binding site [chemical binding]; other site 536230002207 Switch I region; other site 536230002208 G2 box; other site 536230002209 G3 box; other site 536230002210 Switch II region; other site 536230002211 G4 box; other site 536230002212 G5 box; other site 536230002213 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 536230002214 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 536230002215 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 536230002216 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 536230002217 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 536230002218 pseudouridine synthase; Region: TIGR00093 536230002219 active site 536230002220 isocitrate dehydrogenase; Validated; Region: PRK07362 536230002221 isocitrate dehydrogenase; Reviewed; Region: PRK07006 536230002222 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 536230002223 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 536230002224 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 536230002225 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536230002226 DNA-binding site [nucleotide binding]; DNA binding site 536230002227 RNA-binding motif; other site 536230002228 Uncharacterized conserved protein [Function unknown]; Region: COG2127 536230002229 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 536230002230 Clp amino terminal domain; Region: Clp_N; pfam02861 536230002231 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230002232 Walker A motif; other site 536230002233 ATP binding site [chemical binding]; other site 536230002234 Walker B motif; other site 536230002235 arginine finger; other site 536230002236 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230002237 Walker A motif; other site 536230002238 ATP binding site [chemical binding]; other site 536230002239 Walker B motif; other site 536230002240 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 536230002241 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 536230002242 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 536230002243 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230002244 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230002245 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230002246 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230002247 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 536230002248 trimer interface [polypeptide binding]; other site 536230002249 active site 536230002250 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 536230002251 Flavoprotein; Region: Flavoprotein; pfam02441 536230002252 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 536230002253 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 536230002254 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 536230002255 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230002256 active site 536230002257 HIGH motif; other site 536230002258 nucleotide binding site [chemical binding]; other site 536230002259 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 536230002260 active site 536230002261 KMSKS motif; other site 536230002262 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 536230002263 tRNA binding surface [nucleotide binding]; other site 536230002264 anticodon binding site; other site 536230002265 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 536230002266 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 536230002267 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 536230002268 active site 536230002269 Riboflavin kinase; Region: Flavokinase; smart00904 536230002270 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 536230002271 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 536230002272 active site 536230002273 substrate binding site [chemical binding]; other site 536230002274 cosubstrate binding site; other site 536230002275 catalytic site [active] 536230002276 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 536230002277 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 536230002278 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 536230002279 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230002280 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 536230002281 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230002282 Di-iron ligands [ion binding]; other site 536230002283 Transposase; Region: DDE_Tnp_ISL3; pfam01610 536230002284 quinolinate synthetase; Provisional; Region: PRK09375 536230002285 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 536230002286 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 536230002287 dimerization interface [polypeptide binding]; other site 536230002288 active site 536230002289 L-aspartate oxidase; Provisional; Region: PRK09077 536230002290 L-aspartate oxidase; Provisional; Region: PRK06175 536230002291 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 536230002292 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 536230002293 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 536230002294 hypothetical protein; Reviewed; Region: PRK00024 536230002295 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 536230002296 MPN+ (JAMM) motif; other site 536230002297 Zinc-binding site [ion binding]; other site 536230002298 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536230002299 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 536230002300 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 536230002301 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 536230002302 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230002303 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 536230002304 TM-ABC transporter signature motif; other site 536230002305 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 536230002306 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 536230002307 TM-ABC transporter signature motif; other site 536230002308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230002309 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 536230002310 Walker A/P-loop; other site 536230002311 ATP binding site [chemical binding]; other site 536230002312 Q-loop/lid; other site 536230002313 ABC transporter signature motif; other site 536230002314 Walker B; other site 536230002315 D-loop; other site 536230002316 H-loop/switch region; other site 536230002317 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230002318 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536230002319 Walker A/P-loop; other site 536230002320 ATP binding site [chemical binding]; other site 536230002321 Q-loop/lid; other site 536230002322 ABC transporter signature motif; other site 536230002323 Walker B; other site 536230002324 D-loop; other site 536230002325 H-loop/switch region; other site 536230002326 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 536230002327 putative acetyltransferase; Provisional; Region: PRK03624 536230002328 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536230002329 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 536230002330 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 536230002331 inhibitor-cofactor binding pocket; inhibition site 536230002332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230002333 catalytic residue [active] 536230002334 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 536230002335 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 536230002336 catalytic loop [active] 536230002337 iron binding site [ion binding]; other site 536230002338 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 536230002339 FAD binding pocket [chemical binding]; other site 536230002340 FAD binding motif [chemical binding]; other site 536230002341 phosphate binding motif [ion binding]; other site 536230002342 beta-alpha-beta structure motif; other site 536230002343 NAD binding pocket [chemical binding]; other site 536230002344 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536230002345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002346 NAD(P) binding site [chemical binding]; other site 536230002347 active site 536230002348 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 536230002349 RNA binding surface [nucleotide binding]; other site 536230002350 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536230002351 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 536230002352 active site 536230002353 uracil binding [chemical binding]; other site 536230002354 CopC domain; Region: CopC; pfam04234 536230002355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002357 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 536230002358 dimerization interface [polypeptide binding]; other site 536230002359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002361 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 536230002362 dimerization interface [polypeptide binding]; other site 536230002363 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230002364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 536230002365 MOSC domain; Region: MOSC; pfam03473 536230002366 3-alpha domain; Region: 3-alpha; pfam03475 536230002367 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 536230002368 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 536230002369 inhibitor site; inhibition site 536230002370 active site 536230002371 dimer interface [polypeptide binding]; other site 536230002372 catalytic residue [active] 536230002373 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 536230002374 intersubunit interface [polypeptide binding]; other site 536230002375 active site 536230002376 Zn2+ binding site [ion binding]; other site 536230002377 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536230002378 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 536230002379 non-specific DNA binding site [nucleotide binding]; other site 536230002380 salt bridge; other site 536230002381 sequence-specific DNA binding site [nucleotide binding]; other site 536230002382 Cupin domain; Region: Cupin_2; pfam07883 536230002383 Predicted transcriptional regulator [Transcription]; Region: COG2378 536230002384 HTH domain; Region: HTH_11; pfam08279 536230002385 WYL domain; Region: WYL; pfam13280 536230002386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 536230002387 HTH-like domain; Region: HTH_21; pfam13276 536230002388 Integrase core domain; Region: rve; pfam00665 536230002389 Integrase core domain; Region: rve_3; pfam13683 536230002390 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 536230002391 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 536230002392 active site 536230002393 Int/Topo IB signature motif; other site 536230002394 DNA binding site [nucleotide binding] 536230002395 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 536230002396 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 536230002397 Domain of unknown function (DUF932); Region: DUF932; pfam06067 536230002398 ParB-like nuclease domain; Region: ParBc; pfam02195 536230002399 Uncharacterized conserved protein [Function unknown]; Region: COG5489 536230002400 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 536230002401 non-specific DNA binding site [nucleotide binding]; other site 536230002402 salt bridge; other site 536230002403 sequence-specific DNA binding site [nucleotide binding]; other site 536230002404 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 536230002405 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 536230002406 Helix-turn-helix domain; Region: HTH_17; cl17695 536230002407 Replication initiator protein A; Region: RPA; pfam10134 536230002408 ParA-like protein; Provisional; Region: PHA02518 536230002409 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 536230002410 P-loop; other site 536230002411 Magnesium ion binding site [ion binding]; other site 536230002412 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 536230002413 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 536230002414 Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: TraF; COG4959 536230002415 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 536230002416 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 536230002417 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 536230002418 iron-sulfur cluster [ion binding]; other site 536230002419 [2Fe-2S] cluster binding site [ion binding]; other site 536230002420 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 536230002421 putative alpha subunit interface [polypeptide binding]; other site 536230002422 putative active site [active] 536230002423 putative substrate binding site [chemical binding]; other site 536230002424 Fe binding site [ion binding]; other site 536230002425 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 536230002426 inter-subunit interface; other site 536230002427 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 536230002428 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 536230002429 dimer interface [polypeptide binding]; other site 536230002430 active site 536230002431 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 536230002432 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 536230002433 active site 536230002434 dimer interface [polypeptide binding]; other site 536230002435 metal binding site [ion binding]; metal-binding site 536230002436 benzoate transport; Region: 2A0115; TIGR00895 536230002437 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 536230002438 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 536230002439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002440 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 536230002441 dimerization interface [polypeptide binding]; other site 536230002442 substrate binding pocket [chemical binding]; other site 536230002443 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 536230002444 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 536230002445 Walker A motif; other site 536230002446 ATP binding site [chemical binding]; other site 536230002447 Walker B motif; other site 536230002448 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 536230002449 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 536230002450 ATP binding site [chemical binding]; other site 536230002451 Walker A motif; other site 536230002452 hexamer interface [polypeptide binding]; other site 536230002453 Walker B motif; other site 536230002454 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 536230002455 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 536230002456 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 536230002457 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 536230002458 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 536230002459 Walker A motif; other site 536230002460 ATP binding site [chemical binding]; other site 536230002461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230002462 Walker B; other site 536230002463 D-loop; other site 536230002464 H-loop/switch region; other site 536230002465 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 536230002466 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 536230002467 conjugal transfer protein TrbL; Provisional; Region: PRK13875 536230002468 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 536230002469 conjugal transfer protein TrbF; Provisional; Region: PRK13872 536230002470 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 536230002471 VirB7 interaction site; other site 536230002472 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 536230002473 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 536230002474 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 536230002475 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 536230002476 Coenzyme A transferase; Region: CoA_trans; cl17247 536230002477 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 536230002478 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230002479 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 536230002480 FMN binding site [chemical binding]; other site 536230002481 substrate binding site [chemical binding]; other site 536230002482 putative catalytic residue [active] 536230002483 benzoate transport; Region: 2A0115; TIGR00895 536230002484 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 536230002485 putative substrate translocation pore; other site 536230002486 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536230002487 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 536230002488 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230002489 acyl-activating enzyme (AAE) consensus motif; other site 536230002490 AMP binding site [chemical binding]; other site 536230002491 active site 536230002492 CoA binding site [chemical binding]; other site 536230002493 LysR family transcriptional regulator; Provisional; Region: PRK14997 536230002494 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002495 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 536230002496 putative effector binding pocket; other site 536230002497 dimerization interface [polypeptide binding]; other site 536230002498 HTH-like domain; Region: HTH_21; pfam13276 536230002499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 536230002500 Integrase core domain; Region: rve; pfam00665 536230002501 Integrase core domain; Region: rve_3; pfam13683 536230002502 Transposase; Region: HTH_Tnp_1; pfam01527 536230002503 benzoate transport; Region: 2A0115; TIGR00895 536230002504 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 536230002505 putative substrate translocation pore; other site 536230002506 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 536230002507 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 536230002508 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 536230002509 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230002510 ABC transporter signature motif; other site 536230002511 Walker B; other site 536230002512 D-loop; other site 536230002513 H-loop/switch region; other site 536230002514 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536230002515 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 536230002516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002517 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 536230002518 substrate binding site [chemical binding]; other site 536230002519 dimerization interface [polypeptide binding]; other site 536230002520 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 536230002521 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230002522 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230002523 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 536230002524 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 536230002525 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 536230002526 Active Sites [active] 536230002527 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 536230002528 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 536230002529 Active Sites [active] 536230002530 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 536230002531 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 536230002532 CysD dimerization site [polypeptide binding]; other site 536230002533 G1 box; other site 536230002534 putative GEF interaction site [polypeptide binding]; other site 536230002535 GTP/Mg2+ binding site [chemical binding]; other site 536230002536 Switch I region; other site 536230002537 G2 box; other site 536230002538 G3 box; other site 536230002539 Switch II region; other site 536230002540 G4 box; other site 536230002541 G5 box; other site 536230002542 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 536230002543 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 536230002544 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 536230002545 active site 536230002546 SAM binding site [chemical binding]; other site 536230002547 homodimer interface [polypeptide binding]; other site 536230002548 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 536230002549 putative active site [active] 536230002550 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 536230002551 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 536230002552 Predicted permeases [General function prediction only]; Region: COG0795 536230002553 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 536230002554 multifunctional aminopeptidase A; Provisional; Region: PRK00913 536230002555 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 536230002556 interface (dimer of trimers) [polypeptide binding]; other site 536230002557 Substrate-binding/catalytic site; other site 536230002558 Zn-binding sites [ion binding]; other site 536230002559 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 536230002560 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 536230002561 Cytochrome c; Region: Cytochrom_C; cl11414 536230002562 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 536230002563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002564 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 536230002565 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 536230002566 putative dimerization interface [polypeptide binding]; other site 536230002567 putative substrate binding pocket [chemical binding]; other site 536230002568 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 536230002569 Protein of unknown function (DUF541); Region: SIMPL; cl01077 536230002570 EVE domain; Region: EVE; cl00728 536230002571 Cell division protein ZapA; Region: ZapA; pfam05164 536230002572 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 536230002573 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 536230002574 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 536230002575 N-terminal plug; other site 536230002576 ligand-binding site [chemical binding]; other site 536230002577 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 536230002578 ABC-ATPase subunit interface; other site 536230002579 dimer interface [polypeptide binding]; other site 536230002580 putative PBP binding regions; other site 536230002581 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536230002582 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536230002583 Walker A/P-loop; other site 536230002584 ATP binding site [chemical binding]; other site 536230002585 Q-loop/lid; other site 536230002586 ABC transporter signature motif; other site 536230002587 Walker B; other site 536230002588 D-loop; other site 536230002589 H-loop/switch region; other site 536230002590 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 536230002591 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 536230002592 putative dimer interface [polypeptide binding]; other site 536230002593 active site pocket [active] 536230002594 putative cataytic base [active] 536230002595 cobalamin synthase; Reviewed; Region: cobS; PRK00235 536230002596 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 536230002597 catalytic core [active] 536230002598 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 536230002599 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 536230002600 cobalamin binding residues [chemical binding]; other site 536230002601 putative BtuC binding residues; other site 536230002602 dimer interface [polypeptide binding]; other site 536230002603 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 536230002604 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 536230002605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230002606 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 536230002607 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 536230002608 homotrimer interface [polypeptide binding]; other site 536230002609 Walker A motif; other site 536230002610 GTP binding site [chemical binding]; other site 536230002611 Walker B motif; other site 536230002612 cobyric acid synthase; Provisional; Region: PRK00784 536230002613 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 536230002614 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 536230002615 catalytic triad [active] 536230002616 DoxX; Region: DoxX; pfam07681 536230002617 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 536230002618 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 536230002619 P-loop; other site 536230002620 Magnesium ion binding site [ion binding]; other site 536230002621 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 536230002622 tetramerization interface [polypeptide binding]; other site 536230002623 active site 536230002624 pantoate--beta-alanine ligase; Region: panC; TIGR00018 536230002625 Pantoate-beta-alanine ligase; Region: PanC; cd00560 536230002626 active site 536230002627 ATP-binding site [chemical binding]; other site 536230002628 pantoate-binding site; other site 536230002629 HXXH motif; other site 536230002630 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 536230002631 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 536230002632 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 536230002633 Surface antigen; Region: Bac_surface_Ag; pfam01103 536230002634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 536230002635 Family of unknown function (DUF490); Region: DUF490; pfam04357 536230002636 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 536230002637 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 536230002638 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 536230002639 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 536230002640 active site 536230002641 HIGH motif; other site 536230002642 KMSKS motif; other site 536230002643 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 536230002644 tRNA binding surface [nucleotide binding]; other site 536230002645 anticodon binding site; other site 536230002646 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 536230002647 dimer interface [polypeptide binding]; other site 536230002648 putative tRNA-binding site [nucleotide binding]; other site 536230002649 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 536230002650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230002651 ligand binding site [chemical binding]; other site 536230002652 Domain of unknown function DUF59; Region: DUF59; pfam01883 536230002653 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 536230002654 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 536230002655 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 536230002656 E-class dimer interface [polypeptide binding]; other site 536230002657 P-class dimer interface [polypeptide binding]; other site 536230002658 active site 536230002659 Cu2+ binding site [ion binding]; other site 536230002660 Zn2+ binding site [ion binding]; other site 536230002661 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 536230002662 trimer interface [polypeptide binding]; other site 536230002663 active site 536230002664 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 536230002665 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 536230002666 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 536230002667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230002668 catalytic residue [active] 536230002669 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536230002670 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 536230002671 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 536230002672 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 536230002673 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 536230002674 motif II; other site 536230002675 argininosuccinate lyase; Provisional; Region: PRK00855 536230002676 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230002677 active sites [active] 536230002678 tetramer interface [polypeptide binding]; other site 536230002679 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536230002680 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536230002681 PapC C-terminal domain; Region: PapC_C; pfam13953 536230002682 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536230002683 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230002684 Uncharacterized secreted protein [Function unknown]; Region: COG5430 536230002685 Spore Coat Protein U domain; Region: SCPU; pfam05229 536230002686 Spore Coat Protein U domain; Region: SCPU; pfam05229 536230002687 Helix-turn-helix domain; Region: HTH_31; pfam13560 536230002688 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536230002689 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 536230002690 S-adenosylmethionine binding site [chemical binding]; other site 536230002691 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 536230002692 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 536230002693 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 536230002694 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; cl17708 536230002695 domain interfaces; other site 536230002696 active site 536230002697 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 536230002698 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 536230002699 active site 536230002700 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 536230002701 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 536230002702 HemY protein N-terminus; Region: HemY_N; pfam07219 536230002703 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 536230002704 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 536230002705 putative substrate translocation pore; other site 536230002706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230002707 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 536230002708 NAD(P) binding site [chemical binding]; other site 536230002709 active site 536230002710 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536230002711 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 536230002712 NAD(P) binding site [chemical binding]; other site 536230002713 catalytic residues [active] 536230002714 catalytic residues [active] 536230002715 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 536230002716 dimer interface [polypeptide binding]; other site 536230002717 substrate binding site [chemical binding]; other site 536230002718 metal binding sites [ion binding]; metal-binding site 536230002719 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 536230002720 GIY-YIG motif/motif A; other site 536230002721 putative active site [active] 536230002722 putative metal binding site [ion binding]; other site 536230002723 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 536230002724 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 536230002725 Protein of unknown function, DUF482; Region: DUF482; pfam04339 536230002726 NAD synthetase; Provisional; Region: PRK13981 536230002727 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 536230002728 multimer interface [polypeptide binding]; other site 536230002729 active site 536230002730 catalytic triad [active] 536230002731 protein interface 1 [polypeptide binding]; other site 536230002732 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 536230002733 homodimer interface [polypeptide binding]; other site 536230002734 NAD binding pocket [chemical binding]; other site 536230002735 ATP binding pocket [chemical binding]; other site 536230002736 Mg binding site [ion binding]; other site 536230002737 active-site loop [active] 536230002738 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 536230002739 Nitrogen regulatory protein P-II; Region: P-II; smart00938 536230002740 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230002741 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230002742 trimer interface [polypeptide binding]; other site 536230002743 eyelet of channel; other site 536230002744 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 536230002745 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536230002746 Walker A/P-loop; other site 536230002747 ATP binding site [chemical binding]; other site 536230002748 Q-loop/lid; other site 536230002749 ABC transporter signature motif; other site 536230002750 Walker B; other site 536230002751 D-loop; other site 536230002752 H-loop/switch region; other site 536230002753 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230002754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230002755 dimer interface [polypeptide binding]; other site 536230002756 conserved gate region; other site 536230002757 putative PBP binding loops; other site 536230002758 ABC-ATPase subunit interface; other site 536230002759 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230002760 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230002761 dimer interface [polypeptide binding]; other site 536230002762 conserved gate region; other site 536230002763 putative PBP binding loops; other site 536230002764 ABC-ATPase subunit interface; other site 536230002765 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 536230002766 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230002767 substrate binding pocket [chemical binding]; other site 536230002768 membrane-bound complex binding site; other site 536230002769 hinge residues; other site 536230002770 Pirin-related protein [General function prediction only]; Region: COG1741 536230002771 Pirin; Region: Pirin; pfam02678 536230002772 osmolarity response regulator; Provisional; Region: ompR; PRK09468 536230002773 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 536230002774 active site 536230002775 phosphorylation site [posttranslational modification] 536230002776 intermolecular recognition site; other site 536230002777 dimerization interface [polypeptide binding]; other site 536230002778 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230002779 DNA binding site [nucleotide binding] 536230002780 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 536230002781 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230002782 dimer interface [polypeptide binding]; other site 536230002783 phosphorylation site [posttranslational modification] 536230002784 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 536230002785 ATP binding site [chemical binding]; other site 536230002786 Mg2+ binding site [ion binding]; other site 536230002787 G-X-G motif; other site 536230002788 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 536230002789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230002790 dimer interface [polypeptide binding]; other site 536230002791 conserved gate region; other site 536230002792 putative PBP binding loops; other site 536230002793 ABC-ATPase subunit interface; other site 536230002794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230002795 dimer interface [polypeptide binding]; other site 536230002796 conserved gate region; other site 536230002797 putative PBP binding loops; other site 536230002798 ABC-ATPase subunit interface; other site 536230002799 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230002800 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536230002801 Walker A/P-loop; other site 536230002802 ATP binding site [chemical binding]; other site 536230002803 Q-loop/lid; other site 536230002804 ABC transporter signature motif; other site 536230002805 Walker B; other site 536230002806 D-loop; other site 536230002807 H-loop/switch region; other site 536230002808 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 536230002809 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 536230002810 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 536230002811 active site 536230002812 homotetramer interface [polypeptide binding]; other site 536230002813 Predicted ATPase [General function prediction only]; Region: COG3911 536230002814 AAA domain; Region: AAA_28; pfam13521 536230002815 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 536230002816 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230002817 putative substrate translocation pore; other site 536230002818 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; cl17904 536230002819 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 536230002820 substrate binding site [chemical binding]; other site 536230002821 ecotin; Provisional; Region: PRK03719 536230002822 secondary substrate binding site; other site 536230002823 primary substrate binding site; other site 536230002824 inhibition loop; other site 536230002825 dimerization interface [polypeptide binding]; other site 536230002826 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536230002827 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 536230002828 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 536230002829 haemagglutination activity domain; Region: Haemagg_act; pfam05860 536230002830 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 536230002831 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 536230002832 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 536230002833 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 536230002834 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 536230002835 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 536230002836 Transposase; Region: HTH_Tnp_1; pfam01527 536230002837 Transposase; Region: DEDD_Tnp_IS110; pfam01548 536230002838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 536230002839 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 536230002840 Transposase; Region: HTH_Tnp_1; cl17663 536230002841 HTH-like domain; Region: HTH_21; pfam13276 536230002842 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 536230002843 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 536230002844 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 536230002845 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230002846 catalytic residues [active] 536230002847 catalytic nucleophile [active] 536230002848 Presynaptic Site I dimer interface [polypeptide binding]; other site 536230002849 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536230002850 Synaptic Flat tetramer interface [polypeptide binding]; other site 536230002851 Synaptic Site I dimer interface [polypeptide binding]; other site 536230002852 DNA binding site [nucleotide binding] 536230002853 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 536230002854 DNA-binding interface [nucleotide binding]; DNA binding site 536230002855 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 536230002856 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 536230002857 Domain of unknown function (DUF927); Region: DUF927; pfam06048 536230002858 integrase; Provisional; Region: PRK09692 536230002859 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 536230002860 active site 536230002861 Int/Topo IB signature motif; other site 536230002862 Integrase core domain; Region: rve_3; cl15866 536230002863 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 536230002864 rRNA binding site [nucleotide binding]; other site 536230002865 predicted 30S ribosome binding site; other site 536230002866 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230002867 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536230002868 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 536230002869 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 536230002870 Rubredoxin; Region: Rubredoxin; pfam00301 536230002871 iron binding site [ion binding]; other site 536230002872 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 536230002873 ABC transporter ATPase component; Reviewed; Region: PRK11147 536230002874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230002875 Walker A/P-loop; other site 536230002876 ATP binding site [chemical binding]; other site 536230002877 Q-loop/lid; other site 536230002878 ABC transporter signature motif; other site 536230002879 Walker B; other site 536230002880 D-loop; other site 536230002881 H-loop/switch region; other site 536230002882 ABC transporter; Region: ABC_tran_2; pfam12848 536230002883 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230002884 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 536230002885 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 536230002886 ATP binding site [chemical binding]; other site 536230002887 Mg2+ binding site [ion binding]; other site 536230002888 G-X-G motif; other site 536230002889 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 536230002890 anchoring element; other site 536230002891 dimer interface [polypeptide binding]; other site 536230002892 ATP binding site [chemical binding]; other site 536230002893 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 536230002894 active site 536230002895 metal binding site [ion binding]; metal-binding site 536230002896 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536230002897 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 536230002898 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 536230002899 CAP-like domain; other site 536230002900 active site 536230002901 primary dimer interface [polypeptide binding]; other site 536230002902 Predicted integral membrane protein [Function unknown]; Region: COG5615 536230002903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002905 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 536230002906 dimerization interface [polypeptide binding]; other site 536230002907 Predicted membrane protein [Function unknown]; Region: COG4125 536230002908 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 536230002909 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 536230002910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230002911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230002912 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 536230002913 dimerization interface [polypeptide binding]; other site 536230002914 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230002915 allantoate amidohydrolase; Reviewed; Region: PRK12893 536230002916 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 536230002917 active site 536230002918 metal binding site [ion binding]; metal-binding site 536230002919 dimer interface [polypeptide binding]; other site 536230002920 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 536230002921 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 536230002922 active site 536230002923 Zn binding site [ion binding]; other site 536230002924 Chromate transporter; Region: Chromate_transp; pfam02417 536230002925 Chromate transporter; Region: Chromate_transp; pfam02417 536230002926 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536230002927 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230002928 metal binding site [ion binding]; metal-binding site 536230002929 active site 536230002930 I-site; other site 536230002931 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 536230002932 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 536230002933 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 536230002934 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 536230002935 homotrimer interaction site [polypeptide binding]; other site 536230002936 putative active site [active] 536230002937 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 536230002938 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 536230002939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230002940 homodimer interface [polypeptide binding]; other site 536230002941 catalytic residue [active] 536230002942 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536230002943 EamA-like transporter family; Region: EamA; pfam00892 536230002944 EamA-like transporter family; Region: EamA; pfam00892 536230002945 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 536230002946 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 536230002947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230002948 DNA-binding site [nucleotide binding]; DNA binding site 536230002949 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 536230002950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230002951 homodimer interface [polypeptide binding]; other site 536230002952 catalytic residue [active] 536230002953 heat shock protein 90; Provisional; Region: PRK05218 536230002954 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 536230002955 ATP binding site [chemical binding]; other site 536230002956 Mg2+ binding site [ion binding]; other site 536230002957 G-X-G motif; other site 536230002958 Chorismate lyase; Region: Chor_lyase; cl01230 536230002959 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 536230002960 putative active site [active] 536230002961 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536230002962 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 536230002963 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 536230002964 Na binding site [ion binding]; other site 536230002965 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 536230002966 dimer interface [polypeptide binding]; other site 536230002967 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536230002968 transaldolase-like protein; Provisional; Region: PTZ00411 536230002969 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 536230002970 active site 536230002971 dimer interface [polypeptide binding]; other site 536230002972 catalytic residue [active] 536230002973 Benzoate membrane transport protein; Region: BenE; pfam03594 536230002974 benzoate transporter; Region: benE; TIGR00843 536230002975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 536230002976 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 536230002977 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230002978 Walker A motif; other site 536230002979 ATP binding site [chemical binding]; other site 536230002980 Walker B motif; other site 536230002981 arginine finger; other site 536230002982 Cytochrome c553 [Energy production and conversion]; Region: COG2863 536230002983 Cytochrome c; Region: Cytochrom_C; cl11414 536230002984 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 536230002985 EamA-like transporter family; Region: EamA; pfam00892 536230002986 EamA-like transporter family; Region: EamA; cl17759 536230002987 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 536230002988 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230002989 minor groove reading motif; other site 536230002990 helix-hairpin-helix signature motif; other site 536230002991 substrate binding pocket [chemical binding]; other site 536230002992 active site 536230002993 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 536230002994 ferredoxin; Provisional; Region: PRK06991 536230002995 Putative Fe-S cluster; Region: FeS; pfam04060 536230002996 4Fe-4S binding domain; Region: Fer4; pfam00037 536230002997 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230002998 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230002999 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 536230003000 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 536230003001 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 536230003002 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 536230003003 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 536230003004 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 536230003005 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 536230003006 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 536230003007 META domain; Region: META; pfam03724 536230003008 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 536230003009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003010 ATP-grasp domain; Region: ATP-grasp; pfam02222 536230003011 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 536230003012 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 536230003013 DEAD-like helicases superfamily; Region: DEXDc; smart00487 536230003014 ATP binding site [chemical binding]; other site 536230003015 Mg++ binding site [ion binding]; other site 536230003016 motif III; other site 536230003017 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 536230003018 nucleotide binding region [chemical binding]; other site 536230003019 ATP-binding site [chemical binding]; other site 536230003020 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 536230003021 active site 536230003022 HIGH motif; other site 536230003023 nucleotide binding site [chemical binding]; other site 536230003024 KMSKS motif; other site 536230003025 rhodanese superfamily protein; Provisional; Region: PRK05320 536230003026 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 536230003027 active site residue [active] 536230003028 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 536230003029 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 536230003030 putative active site [active] 536230003031 putative PHP Thumb interface [polypeptide binding]; other site 536230003032 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 536230003033 generic binding surface II; other site 536230003034 generic binding surface I; other site 536230003035 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 536230003036 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536230003037 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 536230003038 Walker A/P-loop; other site 536230003039 ATP binding site [chemical binding]; other site 536230003040 Q-loop/lid; other site 536230003041 ABC transporter signature motif; other site 536230003042 Walker B; other site 536230003043 D-loop; other site 536230003044 H-loop/switch region; other site 536230003045 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 536230003046 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 536230003047 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230003048 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 536230003049 putative active site [active] 536230003050 O-Antigen ligase; Region: Wzy_C; cl04850 536230003051 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230003052 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 536230003053 putative ADP-binding pocket [chemical binding]; other site 536230003054 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230003055 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 536230003056 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 536230003057 putative active site [active] 536230003058 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 536230003059 putative metal binding site; other site 536230003060 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 536230003061 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230003062 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 536230003063 Uncharacterized conserved protein [Function unknown]; Region: COG2128 536230003064 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 536230003065 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230003066 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230003067 DNA binding residues [nucleotide binding] 536230003068 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 536230003069 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 536230003070 Pectinacetylesterase; Region: PAE; pfam03283 536230003071 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 536230003072 ribonuclease G; Provisional; Region: PRK11712 536230003073 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 536230003074 homodimer interface [polypeptide binding]; other site 536230003075 oligonucleotide binding site [chemical binding]; other site 536230003076 Maf-like protein; Region: Maf; pfam02545 536230003077 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 536230003078 active site 536230003079 dimer interface [polypeptide binding]; other site 536230003080 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 536230003081 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 536230003082 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 536230003083 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 536230003084 active site 536230003085 (T/H)XGH motif; other site 536230003086 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 536230003087 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 536230003088 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 536230003089 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 536230003090 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 536230003091 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 536230003092 hypothetical protein; Validated; Region: PRK00110 536230003093 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230003094 active site 536230003095 short chain dehydrogenase; Provisional; Region: PRK08339 536230003096 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 536230003097 putative NAD(P) binding site [chemical binding]; other site 536230003098 putative active site [active] 536230003099 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 536230003100 active site 536230003101 dimer interfaces [polypeptide binding]; other site 536230003102 catalytic residues [active] 536230003103 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 536230003104 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 536230003105 NADP binding site [chemical binding]; other site 536230003106 dimer interface [polypeptide binding]; other site 536230003107 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 536230003108 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 536230003109 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536230003110 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 536230003111 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 536230003112 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 536230003113 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 536230003114 Ligand Binding Site [chemical binding]; other site 536230003115 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 536230003116 GAF domain; Region: GAF_3; pfam13492 536230003117 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230003118 dimer interface [polypeptide binding]; other site 536230003119 phosphorylation site [posttranslational modification] 536230003120 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 536230003121 ATP binding site [chemical binding]; other site 536230003122 Mg2+ binding site [ion binding]; other site 536230003123 G-X-G motif; other site 536230003124 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 536230003125 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 536230003126 active site 536230003127 phosphorylation site [posttranslational modification] 536230003128 intermolecular recognition site; other site 536230003129 dimerization interface [polypeptide binding]; other site 536230003130 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230003131 DNA binding site [nucleotide binding] 536230003132 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 536230003133 Domain of unknown function (DUF333); Region: DUF333; pfam03891 536230003134 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 536230003135 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 536230003136 FtsX-like permease family; Region: FtsX; pfam02687 536230003137 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 536230003138 apolar tunnel; other site 536230003139 heme binding site [chemical binding]; other site 536230003140 dimerization interface [polypeptide binding]; other site 536230003141 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 536230003142 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 536230003143 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 536230003144 amidase; Provisional; Region: PRK07042 536230003145 Amidase; Region: Amidase; cl11426 536230003146 citrate-proton symporter; Provisional; Region: PRK15075 536230003147 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 536230003148 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 536230003149 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 536230003150 glucose-1-dehydrogenase; Provisional; Region: PRK06947 536230003151 classical (c) SDRs; Region: SDR_c; cd05233 536230003152 NAD(P) binding site [chemical binding]; other site 536230003153 active site 536230003154 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 536230003155 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230003156 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230003157 Bacterial transcriptional repressor; Region: TetR; pfam13972 536230003158 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 536230003159 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230003160 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 536230003161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536230003162 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 536230003163 putative active site [active] 536230003164 putative metal binding site [ion binding]; other site 536230003165 RDD family; Region: RDD; pfam06271 536230003166 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 536230003167 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 536230003168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230003169 RNA polymerase factor sigma-70; Validated; Region: PRK09047 536230003170 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230003171 DNA binding residues [nucleotide binding] 536230003172 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 536230003173 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230003174 PYR/PP interface [polypeptide binding]; other site 536230003175 dimer interface [polypeptide binding]; other site 536230003176 TPP binding site [chemical binding]; other site 536230003177 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230003178 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 536230003179 TPP-binding site [chemical binding]; other site 536230003180 dimer interface [polypeptide binding]; other site 536230003181 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 536230003182 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 536230003183 putative valine binding site [chemical binding]; other site 536230003184 dimer interface [polypeptide binding]; other site 536230003185 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 536230003186 ketol-acid reductoisomerase; Provisional; Region: PRK05479 536230003187 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 536230003188 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 536230003189 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 536230003190 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 536230003191 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 536230003192 2-isopropylmalate synthase; Validated; Region: PRK00915 536230003193 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 536230003194 active site 536230003195 catalytic residues [active] 536230003196 metal binding site [ion binding]; metal-binding site 536230003197 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 536230003198 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 536230003199 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 536230003200 Sulfate transporter family; Region: Sulfate_transp; pfam00916 536230003201 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 536230003202 active site clefts [active] 536230003203 zinc binding site [ion binding]; other site 536230003204 dimer interface [polypeptide binding]; other site 536230003205 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 536230003206 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 536230003207 putative ligand binding site [chemical binding]; other site 536230003208 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 536230003209 16S/18S rRNA binding site [nucleotide binding]; other site 536230003210 S13e-L30e interaction site [polypeptide binding]; other site 536230003211 25S rRNA binding site [nucleotide binding]; other site 536230003212 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 536230003213 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 536230003214 RNase E interface [polypeptide binding]; other site 536230003215 trimer interface [polypeptide binding]; other site 536230003216 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 536230003217 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 536230003218 RNase E interface [polypeptide binding]; other site 536230003219 trimer interface [polypeptide binding]; other site 536230003220 active site 536230003221 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 536230003222 putative nucleic acid binding region [nucleotide binding]; other site 536230003223 G-X-X-G motif; other site 536230003224 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 536230003225 RNA binding site [nucleotide binding]; other site 536230003226 domain interface; other site 536230003227 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 536230003228 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 536230003229 NAD(P) binding site [chemical binding]; other site 536230003230 triosephosphate isomerase; Provisional; Region: PRK14567 536230003231 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 536230003232 substrate binding site [chemical binding]; other site 536230003233 dimer interface [polypeptide binding]; other site 536230003234 catalytic triad [active] 536230003235 Preprotein translocase SecG subunit; Region: SecG; pfam03840 536230003236 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 536230003237 NADH dehydrogenase subunit B; Validated; Region: PRK06411 536230003238 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 536230003239 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 536230003240 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 536230003241 NADH dehydrogenase subunit D; Validated; Region: PRK06075 536230003242 NADH dehydrogenase subunit E; Validated; Region: PRK07539 536230003243 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 536230003244 putative dimer interface [polypeptide binding]; other site 536230003245 [2Fe-2S] cluster binding site [ion binding]; other site 536230003246 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 536230003247 SLBB domain; Region: SLBB; pfam10531 536230003248 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 536230003249 NADH dehydrogenase subunit G; Validated; Region: PRK09129 536230003250 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 536230003251 catalytic loop [active] 536230003252 iron binding site [ion binding]; other site 536230003253 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 536230003254 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 536230003255 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 536230003256 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 536230003257 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 536230003258 4Fe-4S binding domain; Region: Fer4; cl02805 536230003259 4Fe-4S binding domain; Region: Fer4; pfam00037 536230003260 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 536230003261 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 536230003262 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 536230003263 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 536230003264 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 536230003265 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536230003266 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 536230003267 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536230003268 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 536230003269 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536230003270 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 536230003271 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 536230003272 dimer interface [polypeptide binding]; other site 536230003273 ADP-ribose binding site [chemical binding]; other site 536230003274 active site 536230003275 nudix motif; other site 536230003276 metal binding site [ion binding]; metal-binding site 536230003277 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 536230003278 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 536230003279 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 536230003280 FAD binding site [chemical binding]; other site 536230003281 substrate binding site [chemical binding]; other site 536230003282 catalytic base [active] 536230003283 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 536230003284 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 536230003285 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 536230003286 active site 536230003287 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 536230003288 putative active site [active] 536230003289 putative catalytic site [active] 536230003290 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 536230003291 putative active site [active] 536230003292 putative catalytic site [active] 536230003293 Right handed beta helix region; Region: Beta_helix; pfam13229 536230003294 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230003295 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 536230003296 FAD binding site [chemical binding]; other site 536230003297 substrate binding site [chemical binding]; other site 536230003298 catalytic base [active] 536230003299 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 536230003300 putative active site [active] 536230003301 putative substrate binding site [chemical binding]; other site 536230003302 ATP binding site [chemical binding]; other site 536230003303 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 536230003304 catalytic core [active] 536230003305 enoyl-CoA hydratase; Provisional; Region: PRK07511 536230003306 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 536230003307 substrate binding site [chemical binding]; other site 536230003308 oxyanion hole (OAH) forming residues; other site 536230003309 trimer interface [polypeptide binding]; other site 536230003310 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 536230003311 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536230003312 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 536230003313 C-terminal domain interface [polypeptide binding]; other site 536230003314 GSH binding site (G-site) [chemical binding]; other site 536230003315 dimer interface [polypeptide binding]; other site 536230003316 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 536230003317 putative N-terminal domain interface [polypeptide binding]; other site 536230003318 putative dimer interface [polypeptide binding]; other site 536230003319 putative substrate binding pocket (H-site) [chemical binding]; other site 536230003320 methionine aminotransferase; Validated; Region: PRK09082 536230003321 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 536230003322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230003323 homodimer interface [polypeptide binding]; other site 536230003324 catalytic residue [active] 536230003325 PIN domain; Region: PIN_3; pfam13470 536230003326 PIN domain; Region: PIN_3; cl17397 536230003327 hypothetical protein; Validated; Region: PRK02101 536230003328 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 536230003329 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 536230003330 putative active site [active] 536230003331 Zn binding site [ion binding]; other site 536230003332 Predicted membrane protein [Function unknown]; Region: COG3235 536230003333 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230003334 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; cl17736 536230003335 active site 536230003336 phosphorylation site [posttranslational modification] 536230003337 intermolecular recognition site; other site 536230003338 dimerization interface [polypeptide binding]; other site 536230003339 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230003340 DNA binding residues [nucleotide binding] 536230003341 dimerization interface [polypeptide binding]; other site 536230003342 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 536230003343 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536230003344 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536230003345 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 specificity...; Region: APP_MetAP; cl00279 536230003346 active site 536230003347 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230003348 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 536230003349 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230003350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230003351 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 536230003352 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 536230003353 ligand binding site [chemical binding]; other site 536230003354 NAD binding site [chemical binding]; other site 536230003355 tetramer interface [polypeptide binding]; other site 536230003356 catalytic site [active] 536230003357 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 536230003358 L-serine binding site [chemical binding]; other site 536230003359 ACT domain interface; other site 536230003360 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 536230003361 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 536230003362 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230003363 substrate binding pocket [chemical binding]; other site 536230003364 membrane-bound complex binding site; other site 536230003365 hinge residues; other site 536230003366 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 536230003367 Histidine kinase; Region: HisKA_3; pfam07730 536230003368 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 536230003369 ATP binding site [chemical binding]; other site 536230003370 Mg2+ binding site [ion binding]; other site 536230003371 G-X-G motif; other site 536230003372 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 536230003373 catalytic motif [active] 536230003374 Catalytic residue [active] 536230003375 Aspartyl protease; Region: Asp_protease_2; pfam13650 536230003376 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 536230003377 Cytochrome c; Region: Cytochrom_C; cl11414 536230003378 Cytochrome c; Region: Cytochrom_C; cl11414 536230003379 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230003380 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 536230003381 Cytochrome c; Region: Cytochrom_C; pfam00034 536230003382 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 536230003383 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 536230003384 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 536230003385 Low-spin heme binding site [chemical binding]; other site 536230003386 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 536230003387 Subunit I/II interface [polypeptide binding]; other site 536230003388 Putative Q-pathway; other site 536230003389 Putative D-pathway homolog; other site 536230003390 Putative alternate electron transfer pathway; other site 536230003391 Putative water exit pathway; other site 536230003392 Binuclear center (active site) [active] 536230003393 Putative K-pathway homolog; other site 536230003394 Putative proton exit pathway; other site 536230003395 Subunit I/IIa interface [polypeptide binding]; other site 536230003396 Electron transfer pathway; other site 536230003397 Cytochrome c553 [Energy production and conversion]; Region: COG2863 536230003398 Cytochrome c; Region: Cytochrom_C; cl11414 536230003399 HDOD domain; Region: HDOD; pfam08668 536230003400 PAS domain; Region: PAS_9; pfam13426 536230003401 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 536230003402 putative active site [active] 536230003403 heme pocket [chemical binding]; other site 536230003404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230003405 metal binding site [ion binding]; metal-binding site 536230003406 active site 536230003407 I-site; other site 536230003408 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 536230003409 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 536230003410 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 536230003411 catalytic triad [active] 536230003412 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 536230003413 NADH(P)-binding; Region: NAD_binding_10; pfam13460 536230003414 NAD(P) binding site [chemical binding]; other site 536230003415 putative active site [active] 536230003416 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 536230003417 Protein export membrane protein; Region: SecD_SecF; cl14618 536230003418 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 536230003419 Protein export membrane protein; Region: SecD_SecF; cl14618 536230003420 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 536230003421 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230003422 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230003423 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536230003424 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230003425 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230003426 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 536230003427 Predicted transcriptional regulator [Transcription]; Region: COG1959 536230003428 Transcriptional regulator; Region: Rrf2; pfam02082 536230003429 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 536230003430 NADH(P)-binding; Region: NAD_binding_10; pfam13460 536230003431 NAD binding site [chemical binding]; other site 536230003432 putative active site [active] 536230003433 substrate binding site [chemical binding]; other site 536230003434 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 536230003435 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230003436 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 536230003437 putative DNA binding site [nucleotide binding]; other site 536230003438 putative Zn2+ binding site [ion binding]; other site 536230003439 AsnC family; Region: AsnC_trans_reg; pfam01037 536230003440 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 536230003441 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 536230003442 Walker A/P-loop; other site 536230003443 ATP binding site [chemical binding]; other site 536230003444 Q-loop/lid; other site 536230003445 ABC transporter signature motif; other site 536230003446 Walker B; other site 536230003447 D-loop; other site 536230003448 H-loop/switch region; other site 536230003449 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 536230003450 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230003451 ABC-ATPase subunit interface; other site 536230003452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230003453 ABC-ATPase subunit interface; other site 536230003454 putative PBP binding loops; other site 536230003455 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 536230003456 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 536230003457 putative proline-specific permease; Provisional; Region: proY; PRK10580 536230003458 Predicted membrane protein [Function unknown]; Region: COG1289 536230003459 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 536230003460 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536230003461 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 536230003462 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 536230003463 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 536230003464 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 536230003465 Family description; Region: UvrD_C_2; pfam13538 536230003466 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 536230003467 AAA domain; Region: AAA_30; pfam13604 536230003468 Family description; Region: UvrD_C_2; pfam13538 536230003469 hypothetical protein; Provisional; Region: PRK09256 536230003470 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 536230003471 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 536230003472 EamA-like transporter family; Region: EamA; pfam00892 536230003473 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536230003474 EamA-like transporter family; Region: EamA; pfam00892 536230003475 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 536230003476 ThiC-associated domain; Region: ThiC-associated; pfam13667 536230003477 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 536230003478 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 536230003479 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 536230003480 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 536230003481 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 536230003482 Moco binding site; other site 536230003483 metal coordination site [ion binding]; other site 536230003484 EamA-like transporter family; Region: EamA; pfam00892 536230003485 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 536230003486 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 536230003487 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230003488 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230003489 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 536230003490 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 536230003491 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536230003492 active site 536230003493 metal binding site [ion binding]; metal-binding site 536230003494 hexamer interface [polypeptide binding]; other site 536230003495 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536230003496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230003497 Walker A/P-loop; other site 536230003498 ATP binding site [chemical binding]; other site 536230003499 Q-loop/lid; other site 536230003500 ABC transporter signature motif; other site 536230003501 Walker B; other site 536230003502 D-loop; other site 536230003503 H-loop/switch region; other site 536230003504 TOBE domain; Region: TOBE_2; pfam08402 536230003505 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536230003506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230003507 putative PBP binding loops; other site 536230003508 ABC-ATPase subunit interface; other site 536230003509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 536230003510 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 536230003511 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 536230003512 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230003513 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230003514 DNA binding site [nucleotide binding] 536230003515 domain linker motif; other site 536230003516 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 536230003517 putative dimerization interface [polypeptide binding]; other site 536230003518 putative ligand binding site [chemical binding]; other site 536230003519 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536230003520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536230003521 metal binding site [ion binding]; metal-binding site 536230003522 active site 536230003523 I-site; other site 536230003524 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 536230003525 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 536230003526 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 536230003527 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 536230003528 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 536230003529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230003530 DNA-binding site [nucleotide binding]; DNA binding site 536230003531 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 536230003532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230003533 homodimer interface [polypeptide binding]; other site 536230003534 catalytic residue [active] 536230003535 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230003536 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 536230003537 putative DNA binding site [nucleotide binding]; other site 536230003538 putative Zn2+ binding site [ion binding]; other site 536230003539 AsnC family; Region: AsnC_trans_reg; pfam01037 536230003540 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 536230003541 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 536230003542 glutaminase active site [active] 536230003543 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 536230003544 dimer interface [polypeptide binding]; other site 536230003545 active site 536230003546 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 536230003547 dimer interface [polypeptide binding]; other site 536230003548 active site 536230003549 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 536230003550 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 536230003551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230003552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230003553 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 536230003554 putative effector binding pocket; other site 536230003555 putative dimerization interface [polypeptide binding]; other site 536230003556 short chain dehydrogenase; Provisional; Region: PRK12744 536230003557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230003558 NAD(P) binding site [chemical binding]; other site 536230003559 active site 536230003560 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 536230003561 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 536230003562 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 536230003563 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230003564 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230003565 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 536230003566 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 536230003567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230003568 DNA-binding site [nucleotide binding]; DNA binding site 536230003569 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 536230003570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230003571 homodimer interface [polypeptide binding]; other site 536230003572 catalytic residue [active] 536230003573 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536230003574 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 536230003575 putative dimer interface [polypeptide binding]; other site 536230003576 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536230003577 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 536230003578 putative dimer interface [polypeptide binding]; other site 536230003579 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 536230003580 active site 536230003581 substrate-binding site [chemical binding]; other site 536230003582 metal-binding site [ion binding] 536230003583 GTP binding site [chemical binding]; other site 536230003584 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 536230003585 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536230003586 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230003587 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 536230003588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230003589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230003590 LysR substrate binding domain; Region: LysR_substrate; pfam03466 536230003591 dimerization interface [polypeptide binding]; other site 536230003592 Malonate transporter MadL subunit; Region: MadL; cl04273 536230003593 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 536230003594 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 536230003595 Coenzyme A transferase; Region: CoA_trans; cl17247 536230003596 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 536230003597 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 536230003598 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 536230003599 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 536230003600 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 536230003601 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 536230003602 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 536230003603 Acyl transferase domain; Region: Acyl_transf_1; cl08282 536230003604 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 536230003605 putative active site [active] 536230003606 catalytic site [active] 536230003607 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 536230003608 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536230003609 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 536230003610 C-terminal domain interface [polypeptide binding]; other site 536230003611 GSH binding site (G-site) [chemical binding]; other site 536230003612 dimer interface [polypeptide binding]; other site 536230003613 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 536230003614 N-terminal domain interface [polypeptide binding]; other site 536230003615 proline/glycine betaine transporter; Provisional; Region: PRK10642 536230003616 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 536230003617 putative substrate translocation pore; other site 536230003618 hypothetical protein; Provisional; Region: PRK02237 536230003619 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 536230003620 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 536230003621 active site 536230003622 catalytic site [active] 536230003623 substrate binding site [chemical binding]; other site 536230003624 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 536230003625 RNA/DNA hybrid binding site [nucleotide binding]; other site 536230003626 active site 536230003627 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 536230003628 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 536230003629 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 536230003630 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536230003631 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536230003632 catalytic residue [active] 536230003633 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 536230003634 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536230003635 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 536230003636 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230003637 putative substrate translocation pore; other site 536230003638 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 536230003639 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230003640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230003641 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 536230003642 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 536230003643 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 536230003644 catalytic site [active] 536230003645 subunit interface [polypeptide binding]; other site 536230003646 leucine export protein LeuE; Provisional; Region: PRK10958 536230003647 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 536230003648 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536230003649 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 536230003650 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 536230003651 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536230003652 ATP-grasp domain; Region: ATP-grasp_4; cl17255 536230003653 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 536230003654 IMP binding site; other site 536230003655 dimer interface [polypeptide binding]; other site 536230003656 interdomain contacts; other site 536230003657 partial ornithine binding site; other site 536230003658 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 536230003659 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 536230003660 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 536230003661 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 536230003662 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 536230003663 FtsJ-like methyltransferase; Region: FtsJ; cl17430 536230003664 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 536230003665 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 536230003666 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230003667 Walker A motif; other site 536230003668 ATP binding site [chemical binding]; other site 536230003669 Walker B motif; other site 536230003670 arginine finger; other site 536230003671 Peptidase family M41; Region: Peptidase_M41; pfam01434 536230003672 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 536230003673 dihydropteroate synthase; Region: DHPS; TIGR01496 536230003674 substrate binding pocket [chemical binding]; other site 536230003675 dimer interface [polypeptide binding]; other site 536230003676 inhibitor binding site; inhibition site 536230003677 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 536230003678 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 536230003679 active site 536230003680 substrate binding site [chemical binding]; other site 536230003681 metal binding site [ion binding]; metal-binding site 536230003682 PBP superfamily domain; Region: PBP_like_2; cl17296 536230003683 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 536230003684 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230003685 dimer interface [polypeptide binding]; other site 536230003686 conserved gate region; other site 536230003687 putative PBP binding loops; other site 536230003688 ABC-ATPase subunit interface; other site 536230003689 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 536230003690 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230003691 dimer interface [polypeptide binding]; other site 536230003692 conserved gate region; other site 536230003693 putative PBP binding loops; other site 536230003694 ABC-ATPase subunit interface; other site 536230003695 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 536230003696 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 536230003697 Walker A/P-loop; other site 536230003698 ATP binding site [chemical binding]; other site 536230003699 Q-loop/lid; other site 536230003700 ABC transporter signature motif; other site 536230003701 Walker B; other site 536230003702 D-loop; other site 536230003703 H-loop/switch region; other site 536230003704 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 536230003705 PhoU domain; Region: PhoU; pfam01895 536230003706 PhoU domain; Region: PhoU; pfam01895 536230003707 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 536230003708 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 536230003709 active site 536230003710 phosphorylation site [posttranslational modification] 536230003711 intermolecular recognition site; other site 536230003712 dimerization interface [polypeptide binding]; other site 536230003713 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230003714 DNA binding site [nucleotide binding] 536230003715 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 536230003716 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230003717 dimer interface [polypeptide binding]; other site 536230003718 phosphorylation site [posttranslational modification] 536230003719 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 536230003720 ATP binding site [chemical binding]; other site 536230003721 Mg2+ binding site [ion binding]; other site 536230003722 G-X-G motif; other site 536230003723 polyphosphate kinase; Provisional; Region: PRK05443 536230003724 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 536230003725 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 536230003726 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 536230003727 putative active site [active] 536230003728 catalytic site [active] 536230003729 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 536230003730 putative domain interface [polypeptide binding]; other site 536230003731 putative active site [active] 536230003732 catalytic site [active] 536230003733 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 536230003734 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 536230003735 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 536230003736 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 536230003737 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 536230003738 catalytic core [active] 536230003739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 536230003740 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 536230003741 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 536230003742 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 536230003743 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 536230003744 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 536230003745 active site 536230003746 acyl-activating enzyme (AAE) consensus motif; other site 536230003747 putative CoA binding site [chemical binding]; other site 536230003748 AMP binding site [chemical binding]; other site 536230003749 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536230003750 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 536230003751 Peptidase family M23; Region: Peptidase_M23; pfam01551 536230003752 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 536230003753 active site 536230003754 catalytic residues [active] 536230003755 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 536230003756 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 536230003757 Phage-related minor tail protein [Function unknown]; Region: COG5281 536230003758 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 536230003759 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 536230003760 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 536230003761 Phage capsid family; Region: Phage_capsid; pfam05065 536230003762 hypothetical protein; Region: PHA02030 536230003763 integrase; Provisional; Region: int; PHA02601 536230003764 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 536230003765 active site 536230003766 DNA binding site [nucleotide binding] 536230003767 Int/Topo IB signature motif; other site 536230003768 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 536230003769 DNA binding site [nucleotide binding] 536230003770 active site 536230003771 Int/Topo IB signature motif; other site 536230003772 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 536230003773 PAAR motif; Region: PAAR_motif; pfam05488 536230003774 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 536230003775 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230003776 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230003777 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 536230003778 Leucine carboxyl methyltransferase; Region: LCM; cl01306 536230003779 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 536230003780 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230003781 DNA-binding site [nucleotide binding]; DNA binding site 536230003782 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 536230003783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230003784 homodimer interface [polypeptide binding]; other site 536230003785 catalytic residue [active] 536230003786 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 536230003787 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536230003788 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 536230003789 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 536230003790 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 536230003791 active site 536230003792 catalytic site [active] 536230003793 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 536230003794 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 536230003795 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 536230003796 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 536230003797 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 536230003798 active site 536230003799 catalytic site [active] 536230003800 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 536230003801 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 536230003802 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 536230003803 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 536230003804 active site 536230003805 catalytic site [active] 536230003806 glycogen branching enzyme; Provisional; Region: PRK05402 536230003807 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 536230003808 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 536230003809 active site 536230003810 catalytic site [active] 536230003811 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 536230003812 trehalose synthase; Region: treS_nterm; TIGR02456 536230003813 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 536230003814 active site 536230003815 catalytic site [active] 536230003816 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 536230003817 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 536230003818 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 536230003819 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 536230003820 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 536230003821 active site 536230003822 homodimer interface [polypeptide binding]; other site 536230003823 catalytic site [active] 536230003824 acceptor binding site [chemical binding]; other site 536230003825 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 536230003826 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 536230003827 Interdomain contacts; other site 536230003828 Cytokine receptor motif; other site 536230003829 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 536230003830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230003831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230003832 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 536230003833 dimerization interface [polypeptide binding]; other site 536230003834 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230003835 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 536230003836 active site 536230003837 phosphorylation site [posttranslational modification] 536230003838 intermolecular recognition site; other site 536230003839 dimerization interface [polypeptide binding]; other site 536230003840 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230003841 DNA binding site [nucleotide binding] 536230003842 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 536230003843 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 536230003844 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 536230003845 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230003846 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 536230003847 active site 536230003848 phosphorylation site [posttranslational modification] 536230003849 intermolecular recognition site; other site 536230003850 dimerization interface [polypeptide binding]; other site 536230003851 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230003852 DNA binding site [nucleotide binding] 536230003853 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 536230003854 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 536230003855 trimer interface [polypeptide binding]; other site 536230003856 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 536230003857 trimer interface [polypeptide binding]; other site 536230003858 YadA-like C-terminal region; Region: YadA; pfam03895 536230003859 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230003860 ligand binding site [chemical binding]; other site 536230003861 TPR repeat; Region: TPR_11; pfam13414 536230003862 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 536230003863 binding surface 536230003864 TPR motif; other site 536230003865 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 536230003866 H-NS histone family; Region: Histone_HNS; pfam00816 536230003867 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 536230003868 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 536230003869 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 536230003870 Cu(I) binding site [ion binding]; other site 536230003871 Ricin-type beta-trefoil; Region: RICIN; smart00458 536230003872 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 specific...; Region: RICIN; cd00161 536230003873 putative sugar binding sites [chemical binding]; other site 536230003874 Q-X-W motif; other site 536230003875 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 536230003876 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 536230003877 Galactose oxidase, central domain; Region: Kelch_3; cl02701 536230003878 Kelch motif; Region: Kelch_6; pfam13964 536230003879 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 536230003880 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536230003881 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 536230003882 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 536230003883 PAAR motif; Region: PAAR_motif; pfam05488 536230003884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 536230003885 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 536230003886 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 536230003887 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 536230003888 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 536230003889 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 536230003890 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 536230003891 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 536230003892 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 536230003893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 536230003894 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 536230003895 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 536230003896 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 536230003897 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 536230003898 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 536230003899 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 536230003900 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 536230003901 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 536230003902 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 536230003903 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 536230003904 Transposase; Region: HTH_Tnp_1; cl17663 536230003905 Transposase, Mutator family; Region: Transposase_mut; pfam00872 536230003906 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 536230003907 manganese transport protein MntH; Reviewed; Region: PRK00701 536230003908 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 536230003909 H-NS histone family; Region: Histone_HNS; pfam00816 536230003910 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 536230003911 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 536230003912 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 536230003913 active site 536230003914 benzoate transport; Region: 2A0115; TIGR00895 536230003915 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 536230003916 putative substrate translocation pore; other site 536230003917 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536230003918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230003919 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 536230003920 dimerization interface [polypeptide binding]; other site 536230003921 substrate binding pocket [chemical binding]; other site 536230003922 Spore Coat Protein U domain; Region: SCPU; pfam05229 536230003923 Spore Coat Protein U domain; Region: SCPU; pfam05229 536230003924 Spore Coat Protein U domain; Region: SCPU; pfam05229 536230003925 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536230003926 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230003927 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536230003928 PapC N-terminal domain; Region: PapC_N; pfam13954 536230003929 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536230003930 PapC C-terminal domain; Region: PapC_C; pfam13953 536230003931 Spore Coat Protein U domain; Region: SCPU; pfam05229 536230003932 Spore Coat Protein U domain; Region: SCPU; pfam05229 536230003933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230003934 dimer interface [polypeptide binding]; other site 536230003935 phosphorylation site [posttranslational modification] 536230003936 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 536230003937 ATP binding site [chemical binding]; other site 536230003938 Mg2+ binding site [ion binding]; other site 536230003939 G-X-G motif; other site 536230003940 Response regulator receiver domain; Region: Response_reg; pfam00072 536230003941 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 536230003942 active site 536230003943 phosphorylation site [posttranslational modification] 536230003944 intermolecular recognition site; other site 536230003945 dimerization interface [polypeptide binding]; other site 536230003946 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230003947 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 536230003948 active site 536230003949 phosphorylation site [posttranslational modification] 536230003950 intermolecular recognition site; other site 536230003951 dimerization interface [polypeptide binding]; other site 536230003952 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230003953 DNA binding residues [nucleotide binding] 536230003954 dimerization interface [polypeptide binding]; other site 536230003955 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 536230003956 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230003957 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 536230003958 putative substrate translocation pore; other site 536230003959 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 536230003960 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230003961 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230003962 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 536230003963 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 536230003964 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 536230003965 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 536230003966 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 536230003967 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 536230003968 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 536230003969 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 536230003970 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 536230003971 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 536230003972 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 536230003973 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 536230003974 nudix motif; other site 536230003975 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 536230003976 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230003977 active site 536230003978 HIGH motif; other site 536230003979 nucleotide binding site [chemical binding]; other site 536230003980 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 536230003981 KMSKS motif; other site 536230003982 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 536230003983 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 536230003984 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536230003985 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 536230003986 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 536230003987 motif 1; other site 536230003988 active site 536230003989 motif 2; other site 536230003990 motif 3; other site 536230003991 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 536230003992 DHHA1 domain; Region: DHHA1; pfam02272 536230003993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230003994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230003995 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 536230003996 dimerization interface [polypeptide binding]; other site 536230003997 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 536230003998 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 536230003999 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536230004000 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230004001 protein binding site [polypeptide binding]; other site 536230004002 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230004003 protein binding site [polypeptide binding]; other site 536230004004 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 536230004005 nudix motif; other site 536230004006 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 536230004007 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 536230004008 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 536230004009 putative active site [active] 536230004010 metal binding site [ion binding]; metal-binding site 536230004011 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 536230004012 active site 536230004013 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 536230004014 TM-ABC transporter signature motif; other site 536230004015 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 536230004016 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 536230004017 TM-ABC transporter signature motif; other site 536230004018 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230004019 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 536230004020 Walker A/P-loop; other site 536230004021 ATP binding site [chemical binding]; other site 536230004022 Q-loop/lid; other site 536230004023 ABC transporter signature motif; other site 536230004024 Walker B; other site 536230004025 D-loop; other site 536230004026 H-loop/switch region; other site 536230004027 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230004028 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536230004029 Walker A/P-loop; other site 536230004030 ATP binding site [chemical binding]; other site 536230004031 Q-loop/lid; other site 536230004032 ABC transporter signature motif; other site 536230004033 Walker B; other site 536230004034 D-loop; other site 536230004035 H-loop/switch region; other site 536230004036 KduI/IolB family; Region: KduI; pfam04962 536230004037 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 536230004038 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 536230004039 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230004040 PYR/PP interface [polypeptide binding]; other site 536230004041 dimer interface [polypeptide binding]; other site 536230004042 TPP binding site [chemical binding]; other site 536230004043 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230004044 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 536230004045 TPP-binding site [chemical binding]; other site 536230004046 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230004047 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 536230004048 substrate binding site [chemical binding]; other site 536230004049 ATP binding site [chemical binding]; other site 536230004050 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 536230004051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 536230004052 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230004053 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536230004054 Walker A/P-loop; other site 536230004055 ATP binding site [chemical binding]; other site 536230004056 Q-loop/lid; other site 536230004057 ABC transporter signature motif; other site 536230004058 Walker B; other site 536230004059 D-loop; other site 536230004060 H-loop/switch region; other site 536230004061 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230004062 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 536230004063 TM-ABC transporter signature motif; other site 536230004064 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 536230004065 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 536230004066 putative ligand binding site [chemical binding]; other site 536230004067 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536230004068 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536230004069 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 536230004070 putative active site [active] 536230004071 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536230004072 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536230004073 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536230004074 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536230004075 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536230004076 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536230004077 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 536230004078 CPxP motif; other site 536230004079 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230004080 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 536230004081 active site 536230004082 phosphorylation site [posttranslational modification] 536230004083 intermolecular recognition site; other site 536230004084 dimerization interface [polypeptide binding]; other site 536230004085 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230004086 DNA binding site [nucleotide binding] 536230004087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 536230004088 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536230004089 FecR protein; Region: FecR; pfam04773 536230004090 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 536230004091 CHASE2 domain; Region: CHASE2; pfam05226 536230004092 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 536230004093 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230004094 dimer interface [polypeptide binding]; other site 536230004095 phosphorylation site [posttranslational modification] 536230004096 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 536230004097 ATP binding site [chemical binding]; other site 536230004098 Mg2+ binding site [ion binding]; other site 536230004099 G-X-G motif; other site 536230004100 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 536230004101 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 536230004102 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 536230004103 active site 536230004104 tetramer interface; other site 536230004105 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 536230004106 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 536230004107 HIGH motif; other site 536230004108 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 536230004109 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 536230004110 active site 536230004111 KMSKS motif; other site 536230004112 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 536230004113 tRNA binding surface [nucleotide binding]; other site 536230004114 anticodon binding site; other site 536230004115 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 536230004116 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 536230004117 Part of AAA domain; Region: AAA_19; pfam13245 536230004118 Family description; Region: UvrD_C_2; pfam13538 536230004119 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 536230004120 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 536230004121 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 536230004122 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230004123 putative substrate translocation pore; other site 536230004124 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230004125 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230004126 dimer interface [polypeptide binding]; other site 536230004127 putative CheW interface [polypeptide binding]; other site 536230004128 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 536230004129 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230004130 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230004131 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 536230004132 Fusaric acid resistance protein family; Region: FUSC; pfam04632 536230004133 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536230004134 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 536230004135 transcriptional regulator; Provisional; Region: PRK10632 536230004136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230004137 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 536230004138 putative effector binding pocket; other site 536230004139 dimerization interface [polypeptide binding]; other site 536230004140 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536230004141 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230004142 active site 536230004143 metal binding site [ion binding]; metal-binding site 536230004144 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230004145 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230004146 FAD binding domain; Region: FAD_binding_4; pfam01565 536230004147 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 536230004148 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536230004149 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536230004150 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 536230004151 Protein of unknown function (DUF962); Region: DUF962; cl01879 536230004152 FOG: CBS domain [General function prediction only]; Region: COG0517 536230004153 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 536230004154 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 536230004155 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536230004156 putative acyl-acceptor binding pocket; other site 536230004157 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 536230004158 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 536230004159 Tetramer interface [polypeptide binding]; other site 536230004160 active site 536230004161 FMN-binding site [chemical binding]; other site 536230004162 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 536230004163 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536230004164 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 536230004165 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 536230004166 short chain dehydrogenase; Provisional; Region: PRK06949 536230004167 classical (c) SDRs; Region: SDR_c; cd05233 536230004168 NAD(P) binding site [chemical binding]; other site 536230004169 active site 536230004170 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 536230004171 active site 536230004172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230004173 Transposase; Region: DDE_Tnp_ISL3; pfam01610 536230004174 PAS domain; Region: PAS_9; pfam13426 536230004175 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 536230004176 putative active site [active] 536230004177 heme pocket [chemical binding]; other site 536230004178 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230004179 DNA binding residues [nucleotide binding] 536230004180 dimerization interface [polypeptide binding]; other site 536230004181 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 536230004182 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 536230004183 short chain dehydrogenase; Provisional; Region: PRK07041 536230004184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004185 NAD(P) binding site [chemical binding]; other site 536230004186 active site 536230004187 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 536230004188 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 536230004189 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 536230004190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230004191 transcriptional activator TtdR; Provisional; Region: PRK09801 536230004192 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 536230004193 putative effector binding pocket; other site 536230004194 dimerization interface [polypeptide binding]; other site 536230004195 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230004196 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536230004197 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 536230004198 homotrimer interaction site [polypeptide binding]; other site 536230004199 putative active site [active] 536230004200 HD domain; Region: HD_4; pfam13328 536230004201 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 536230004202 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536230004203 synthetase active site [active] 536230004204 NTP binding site [chemical binding]; other site 536230004205 metal binding site [ion binding]; metal-binding site 536230004206 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 536230004207 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 536230004208 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 536230004209 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 536230004210 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 536230004211 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 536230004212 active site 536230004213 dimer interface [polypeptide binding]; other site 536230004214 motif 1; other site 536230004215 motif 2; other site 536230004216 motif 3; other site 536230004217 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 536230004218 anticodon binding site; other site 536230004219 translation initiation factor IF-3; Region: infC; TIGR00168 536230004220 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 536230004221 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 536230004222 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 536230004223 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 536230004224 23S rRNA binding site [nucleotide binding]; other site 536230004225 L21 binding site [polypeptide binding]; other site 536230004226 L13 binding site [polypeptide binding]; other site 536230004227 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 536230004228 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 536230004229 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 536230004230 dimer interface [polypeptide binding]; other site 536230004231 motif 1; other site 536230004232 active site 536230004233 motif 2; other site 536230004234 motif 3; other site 536230004235 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 536230004236 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 536230004237 putative tRNA-binding site [nucleotide binding]; other site 536230004238 B3/4 domain; Region: B3_4; pfam03483 536230004239 tRNA synthetase B5 domain; Region: B5; smart00874 536230004240 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 536230004241 dimer interface [polypeptide binding]; other site 536230004242 motif 1; other site 536230004243 motif 3; other site 536230004244 motif 2; other site 536230004245 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 536230004246 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 536230004247 IHF dimer interface [polypeptide binding]; other site 536230004248 IHF - DNA interface [nucleotide binding]; other site 536230004249 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 536230004250 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536230004251 DNA binding residues [nucleotide binding] 536230004252 Domain of unknown function (DUF811); Region: DUF811; pfam05665 536230004253 Domain of unknown function (DUF811); Region: DUF811; pfam05665 536230004254 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 536230004255 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 536230004256 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 536230004257 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 536230004258 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 536230004259 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 536230004260 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 536230004261 outer membrane protein A; Reviewed; Region: PRK10808 536230004262 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 536230004263 Uncharacterized conserved protein [Function unknown]; Region: COG1434 536230004264 putative active site [active] 536230004265 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 536230004266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230004267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230004268 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 536230004269 putative dimerization interface [polypeptide binding]; other site 536230004270 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 536230004271 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536230004272 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 536230004273 RNA binding surface [nucleotide binding]; other site 536230004274 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 536230004275 probable active site [active] 536230004276 ribosome maturation protein RimP; Reviewed; Region: PRK00092 536230004277 Sm and related proteins; Region: Sm_like; cl00259 536230004278 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 536230004279 putative oligomer interface [polypeptide binding]; other site 536230004280 putative RNA binding site [nucleotide binding]; other site 536230004281 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 536230004282 NusA N-terminal domain; Region: NusA_N; pfam08529 536230004283 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 536230004284 RNA binding site [nucleotide binding]; other site 536230004285 homodimer interface [polypeptide binding]; other site 536230004286 NusA-like KH domain; Region: KH_5; pfam13184 536230004287 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 536230004288 G-X-X-G motif; other site 536230004289 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 536230004290 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 536230004291 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 536230004292 translation initiation factor IF-2; Region: IF-2; TIGR00487 536230004293 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 536230004294 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 536230004295 G1 box; other site 536230004296 putative GEF interaction site [polypeptide binding]; other site 536230004297 GTP/Mg2+ binding site [chemical binding]; other site 536230004298 Switch I region; other site 536230004299 G2 box; other site 536230004300 G3 box; other site 536230004301 Switch II region; other site 536230004302 G4 box; other site 536230004303 G5 box; other site 536230004304 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 536230004305 Translation-initiation factor 2; Region: IF-2; pfam11987 536230004306 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 536230004307 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 536230004308 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 536230004309 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 536230004310 RNA binding site [nucleotide binding]; other site 536230004311 active site 536230004312 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 536230004313 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230004314 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 536230004315 putative substrate translocation pore; other site 536230004316 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 536230004317 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 536230004318 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230004319 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 536230004320 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 536230004321 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230004322 MarR family; Region: MarR_2; pfam12802 536230004323 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 536230004324 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 536230004325 G1 box; other site 536230004326 putative GEF interaction site [polypeptide binding]; other site 536230004327 GTP/Mg2+ binding site [chemical binding]; other site 536230004328 Switch I region; other site 536230004329 G2 box; other site 536230004330 G3 box; other site 536230004331 Switch II region; other site 536230004332 G4 box; other site 536230004333 G5 box; other site 536230004334 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 536230004335 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 536230004336 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 536230004337 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 536230004338 TPP-binding site [chemical binding]; other site 536230004339 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 536230004340 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 536230004341 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 536230004342 E3 interaction surface; other site 536230004343 lipoyl attachment site [posttranslational modification]; other site 536230004344 e3 binding domain; Region: E3_binding; pfam02817 536230004345 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 536230004346 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 536230004347 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536230004348 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536230004349 Predicted ATPase [General function prediction only]; Region: COG1485 536230004350 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230004351 Walker B; other site 536230004352 D-loop; other site 536230004353 H-loop/switch region; other site 536230004354 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 536230004355 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 536230004356 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 536230004357 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 536230004358 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 536230004359 Flp/Fap pilin component; Region: Flp_Fap; cl01585 536230004360 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 536230004361 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 536230004362 TadE-like protein; Region: TadE; pfam07811 536230004363 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 536230004364 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 536230004365 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 536230004366 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 536230004367 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 536230004368 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 contains...; Region: CpaE_like; cd03111 536230004369 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 536230004370 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 536230004371 ATP binding site [chemical binding]; other site 536230004372 Walker A motif; other site 536230004373 hexamer interface [polypeptide binding]; other site 536230004374 Walker B motif; other site 536230004375 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 536230004376 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230004377 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 536230004378 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230004379 TPR repeat; Region: TPR_11; pfam13414 536230004380 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 536230004381 binding surface 536230004382 TPR motif; other site 536230004383 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 536230004384 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 536230004385 Predicted membrane protein [Function unknown]; Region: COG4655 536230004386 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 536230004387 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 536230004388 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230004389 Walker A motif; other site 536230004390 ATP binding site [chemical binding]; other site 536230004391 Walker B motif; other site 536230004392 arginine finger; other site 536230004393 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536230004394 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 536230004395 bacterial Hfq-like; Region: Hfq; cd01716 536230004396 hexamer interface [polypeptide binding]; other site 536230004397 Sm1 motif; other site 536230004398 RNA binding site [nucleotide binding]; other site 536230004399 Sm2 motif; other site 536230004400 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 536230004401 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 536230004402 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 536230004403 acyl-activating enzyme (AAE) consensus motif; other site 536230004404 putative AMP binding site [chemical binding]; other site 536230004405 putative active site [active] 536230004406 putative CoA binding site [chemical binding]; other site 536230004407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230004408 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230004409 putative sialic acid transporter; Region: 2A0112; TIGR00891 536230004410 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 536230004411 putative substrate translocation pore; other site 536230004412 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 536230004413 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536230004414 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 536230004415 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 536230004416 Sulfate transporter family; Region: Sulfate_transp; pfam00916 536230004417 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 536230004418 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 536230004419 metal binding site [ion binding]; metal-binding site 536230004420 Phosphoesterase family; Region: Phosphoesterase; pfam04185 536230004421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230004422 dimer interface [polypeptide binding]; other site 536230004423 putative CheW interface [polypeptide binding]; other site 536230004424 ribonuclease R; Region: RNase_R; TIGR02063 536230004425 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 536230004426 RNB domain; Region: RNB; pfam00773 536230004427 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230004428 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 536230004429 RNA binding site [nucleotide binding]; other site 536230004430 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 536230004431 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 536230004432 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 536230004433 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 536230004434 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 536230004435 amidase catalytic site [active] 536230004436 Zn binding residues [ion binding]; other site 536230004437 substrate binding site [chemical binding]; other site 536230004438 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536230004439 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 536230004440 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536230004441 active site 536230004442 dimer interface [polypeptide binding]; other site 536230004443 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536230004444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230004445 DNA-binding site [nucleotide binding]; DNA binding site 536230004446 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536230004447 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536230004448 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536230004449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004450 dimer interface [polypeptide binding]; other site 536230004451 conserved gate region; other site 536230004452 putative PBP binding loops; other site 536230004453 ABC-ATPase subunit interface; other site 536230004454 cystine transporter subunit; Provisional; Region: PRK11260 536230004455 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230004456 substrate binding pocket [chemical binding]; other site 536230004457 membrane-bound complex binding site; other site 536230004458 hinge residues; other site 536230004459 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 536230004460 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 536230004461 quinone interaction residues [chemical binding]; other site 536230004462 active site 536230004463 catalytic residues [active] 536230004464 FMN binding site [chemical binding]; other site 536230004465 substrate binding site [chemical binding]; other site 536230004466 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 536230004467 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 536230004468 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 536230004469 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 536230004470 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 536230004471 nudix motif; other site 536230004472 hypothetical protein; Provisional; Region: PRK02487 536230004473 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 536230004474 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 536230004475 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 536230004476 substrate binding site [chemical binding]; other site 536230004477 oxyanion hole (OAH) forming residues; other site 536230004478 trimer interface [polypeptide binding]; other site 536230004479 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 536230004480 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 536230004481 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 536230004482 active site 536230004483 dimer interface [polypeptide binding]; other site 536230004484 non-prolyl cis peptide bond; other site 536230004485 insertion regions; other site 536230004486 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536230004487 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004488 dimer interface [polypeptide binding]; other site 536230004489 conserved gate region; other site 536230004490 putative PBP binding loops; other site 536230004491 ABC-ATPase subunit interface; other site 536230004492 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230004493 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536230004494 Walker A/P-loop; other site 536230004495 ATP binding site [chemical binding]; other site 536230004496 Q-loop/lid; other site 536230004497 ABC transporter signature motif; other site 536230004498 Walker B; other site 536230004499 D-loop; other site 536230004500 H-loop/switch region; other site 536230004501 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 536230004502 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 536230004503 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 536230004504 FMN binding site [chemical binding]; other site 536230004505 active site 536230004506 catalytic residues [active] 536230004507 substrate binding site [chemical binding]; other site 536230004508 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536230004509 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 536230004510 Predicted transcriptional regulators [Transcription]; Region: COG1733 536230004511 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 536230004512 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 536230004513 CoenzymeA binding site [chemical binding]; other site 536230004514 subunit interaction site [polypeptide binding]; other site 536230004515 PHB binding site; other site 536230004516 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 536230004517 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536230004518 active site 536230004519 catalytic tetrad [active] 536230004520 Predicted permease; Region: DUF318; cl17795 536230004521 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536230004522 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536230004523 nodulation ABC transporter NodI; Provisional; Region: PRK13537 536230004524 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 536230004525 Walker A/P-loop; other site 536230004526 ATP binding site [chemical binding]; other site 536230004527 Q-loop/lid; other site 536230004528 ABC transporter signature motif; other site 536230004529 Walker B; other site 536230004530 D-loop; other site 536230004531 H-loop/switch region; other site 536230004532 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 536230004533 Ligand Binding Site [chemical binding]; other site 536230004534 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 536230004535 LexA repressor; Validated; Region: PRK00215 536230004536 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 536230004537 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 536230004538 Catalytic site [active] 536230004539 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230004540 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 536230004541 substrate binding pocket [chemical binding]; other site 536230004542 membrane-bound complex binding site; other site 536230004543 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 536230004544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004545 dimer interface [polypeptide binding]; other site 536230004546 conserved gate region; other site 536230004547 putative PBP binding loops; other site 536230004548 ABC-ATPase subunit interface; other site 536230004549 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 536230004550 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004551 dimer interface [polypeptide binding]; other site 536230004552 conserved gate region; other site 536230004553 putative PBP binding loops; other site 536230004554 ABC-ATPase subunit interface; other site 536230004555 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 536230004556 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 536230004557 Walker A/P-loop; other site 536230004558 ATP binding site [chemical binding]; other site 536230004559 Q-loop/lid; other site 536230004560 ABC transporter signature motif; other site 536230004561 Walker B; other site 536230004562 D-loop; other site 536230004563 H-loop/switch region; other site 536230004564 TOBE-like domain; Region: TOBE_3; pfam12857 536230004565 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 536230004566 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230004567 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 536230004568 substrate binding site [chemical binding]; other site 536230004569 dimerization interface [polypeptide binding]; other site 536230004570 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 536230004571 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 536230004572 ligand binding site [chemical binding]; other site 536230004573 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 536230004574 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536230004575 Walker A/P-loop; other site 536230004576 ATP binding site [chemical binding]; 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 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536230004583 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 536230004584 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230004585 TM-ABC transporter signature motif; other site 536230004586 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230004587 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230004588 DNA binding site [nucleotide binding] 536230004589 domain linker motif; other site 536230004590 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536230004591 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230004592 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 536230004593 substrate binding site [chemical binding]; other site 536230004594 dimer interface [polypeptide binding]; other site 536230004595 ATP binding site [chemical binding]; other site 536230004596 Tar ligand binding domain homologue; Region: TarH; pfam02203 536230004597 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 536230004598 dimerization interface [polypeptide binding]; other site 536230004599 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 536230004600 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230004601 dimer interface [polypeptide binding]; other site 536230004602 putative CheW interface [polypeptide binding]; other site 536230004603 PrkA family serine protein kinase; Provisional; Region: PRK15455 536230004604 AAA ATPase domain; Region: AAA_16; pfam13191 536230004605 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 536230004606 hypothetical protein; Provisional; Region: PRK05325 536230004607 SpoVR family protein; Provisional; Region: PRK11767 536230004608 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 536230004609 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 536230004610 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 536230004611 putative substrate translocation pore; other site 536230004612 NMT1-like family; Region: NMT1_2; pfam13379 536230004613 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 536230004614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230004615 Transposase; Region: DDE_Tnp_ISL3; pfam01610 536230004616 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230004617 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536230004618 Walker A/P-loop; other site 536230004619 ATP binding site [chemical binding]; other site 536230004620 Q-loop/lid; other site 536230004621 ABC transporter signature motif; other site 536230004622 Walker B; other site 536230004623 D-loop; other site 536230004624 H-loop/switch region; other site 536230004625 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536230004626 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 536230004627 putative PBP binding loops; other site 536230004628 dimer interface [polypeptide binding]; other site 536230004629 ABC-ATPase subunit interface; other site 536230004630 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 536230004631 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 536230004632 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 536230004633 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 536230004634 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 536230004635 AAA domain; Region: AAA_31; pfam13614 536230004636 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 contains...; Region: CpaE_like; cd03111 536230004637 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 536230004638 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 536230004639 ATP binding site [chemical binding]; other site 536230004640 Walker A motif; other site 536230004641 hexamer interface [polypeptide binding]; other site 536230004642 Walker B motif; other site 536230004643 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 536230004644 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230004645 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 536230004646 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230004647 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 536230004648 binding surface 536230004649 TPR motif; other site 536230004650 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 536230004651 TadE-like protein; Region: TadE; pfam07811 536230004652 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230004653 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230004654 substrate binding pocket [chemical binding]; other site 536230004655 membrane-bound complex binding site; other site 536230004656 hinge residues; other site 536230004657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004658 dimer interface [polypeptide binding]; other site 536230004659 conserved gate region; other site 536230004660 putative PBP binding loops; other site 536230004661 ABC-ATPase subunit interface; other site 536230004662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004663 dimer interface [polypeptide binding]; other site 536230004664 conserved gate region; other site 536230004665 putative PBP binding loops; other site 536230004666 ABC-ATPase subunit interface; other site 536230004667 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 536230004668 Peptidase family M23; Region: Peptidase_M23; pfam01551 536230004669 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 536230004670 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230004671 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 536230004672 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 536230004673 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230004674 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230004675 multidrug efflux protein; Reviewed; Region: PRK09577 536230004676 Protein export membrane protein; Region: SecD_SecF; cl14618 536230004677 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 536230004678 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536230004679 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536230004680 PapC N-terminal domain; Region: PapC_N; pfam13954 536230004681 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536230004682 PapC C-terminal domain; Region: PapC_C; pfam13953 536230004683 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536230004684 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230004685 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536230004686 Fimbrial protein; Region: Fimbrial; pfam00419 536230004687 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536230004688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230004689 Walker A/P-loop; other site 536230004690 ATP binding site [chemical binding]; other site 536230004691 Q-loop/lid; other site 536230004692 ABC transporter signature motif; other site 536230004693 Walker B; other site 536230004694 D-loop; other site 536230004695 H-loop/switch region; other site 536230004696 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 536230004697 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 536230004698 Ligand Binding Site [chemical binding]; other site 536230004699 Molecular Tunnel; other site 536230004700 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 536230004701 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536230004702 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230004703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230004704 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 536230004705 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 536230004706 putative ligand binding site [chemical binding]; other site 536230004707 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 536230004708 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536230004709 Walker A/P-loop; other site 536230004710 ATP binding site [chemical binding]; other site 536230004711 Q-loop/lid; other site 536230004712 ABC transporter signature motif; other site 536230004713 Walker B; other site 536230004714 D-loop; other site 536230004715 H-loop/switch region; other site 536230004716 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536230004717 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 536230004718 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230004719 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 536230004720 TM-ABC transporter signature motif; other site 536230004721 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536230004722 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 536230004723 NAD(P) binding site [chemical binding]; other site 536230004724 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 536230004725 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 536230004726 N- and C-terminal domain interface [polypeptide binding]; other site 536230004727 putative active site [active] 536230004728 MgATP binding site [chemical binding]; other site 536230004729 catalytic site [active] 536230004730 metal binding site [ion binding]; metal-binding site 536230004731 putative xylulose binding site [chemical binding]; other site 536230004732 putative homodimer interface [polypeptide binding]; other site 536230004733 short chain dehydrogenase; Provisional; Region: PRK07060 536230004734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004735 NAD(P) binding site [chemical binding]; other site 536230004736 active site 536230004737 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 536230004738 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230004739 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 536230004740 DNA binding residues [nucleotide binding] 536230004741 MbtH-like protein; Region: MbtH; cl01279 536230004742 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 536230004743 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536230004744 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536230004745 Walker A/P-loop; other site 536230004746 ATP binding site [chemical binding]; other site 536230004747 Q-loop/lid; other site 536230004748 ABC transporter signature motif; other site 536230004749 Walker B; other site 536230004750 D-loop; other site 536230004751 H-loop/switch region; other site 536230004752 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536230004753 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 536230004754 dimer interface [polypeptide binding]; other site 536230004755 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 536230004756 ABC-ATPase subunit interface; other site 536230004757 dimer interface [polypeptide binding]; other site 536230004758 putative PBP binding regions; other site 536230004759 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 536230004760 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 536230004761 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 536230004762 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 proteins...; Region: FhuD; cd01146 536230004763 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 536230004764 siderophore binding site; other site 536230004765 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 536230004766 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 536230004767 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 536230004768 Walker A/P-loop; other site 536230004769 ATP binding site [chemical binding]; other site 536230004770 Q-loop/lid; other site 536230004771 ABC transporter signature motif; other site 536230004772 Walker B; other site 536230004773 D-loop; other site 536230004774 H-loop/switch region; other site 536230004775 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230004776 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230004777 acyl-activating enzyme (AAE) consensus motif; other site 536230004778 AMP binding site [chemical binding]; other site 536230004779 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230004780 Condensation domain; Region: Condensation; pfam00668 536230004781 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230004782 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230004783 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230004784 acyl-activating enzyme (AAE) consensus motif; other site 536230004785 AMP binding site [chemical binding]; other site 536230004786 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230004787 Condensation domain; Region: Condensation; pfam00668 536230004788 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536230004789 Condensation domain; Region: Condensation; pfam00668 536230004790 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230004791 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230004792 acyl-activating enzyme (AAE) consensus motif; other site 536230004793 AMP binding site [chemical binding]; other site 536230004794 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230004795 Condensation domain; Region: Condensation; pfam00668 536230004796 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230004797 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230004798 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230004799 acyl-activating enzyme (AAE) consensus motif; other site 536230004800 AMP binding site [chemical binding]; other site 536230004801 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230004802 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230004803 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 536230004804 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536230004805 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536230004806 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 536230004807 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 536230004808 N-terminal plug; other site 536230004809 ligand-binding site [chemical binding]; other site 536230004810 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 536230004811 catalytic site [active] 536230004812 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 536230004813 catalytic triad [active] 536230004814 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 536230004815 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 536230004816 homodimer interface [polypeptide binding]; other site 536230004817 Walker A motif; other site 536230004818 ATP binding site [chemical binding]; other site 536230004819 hydroxycobalamin binding site [chemical binding]; other site 536230004820 Walker B motif; other site 536230004821 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 536230004822 High-affinity nickel-transport protein; Region: NicO; cl00964 536230004823 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 536230004824 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 536230004825 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 536230004826 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 536230004827 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 536230004828 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 536230004829 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230004830 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 536230004831 Walker A motif; other site 536230004832 ATP binding site [chemical binding]; other site 536230004833 Walker B motif; other site 536230004834 arginine finger; other site 536230004835 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 536230004836 metal ion-dependent adhesion site (MIDAS); other site 536230004837 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 536230004838 Serine hydrolase (FSH1); Region: FSH1; pfam03959 536230004839 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 536230004840 active site 536230004841 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 536230004842 aromatic chitin/cellulose binding site residues [chemical binding]; other site 536230004843 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 536230004844 aromatic chitin/cellulose binding site residues [chemical binding]; other site 536230004845 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 536230004846 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 536230004847 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 536230004848 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 536230004849 active site 536230004850 SAM binding site [chemical binding]; other site 536230004851 homodimer interface [polypeptide binding]; other site 536230004852 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 536230004853 active site 536230004854 SAM binding site [chemical binding]; other site 536230004855 homodimer interface [polypeptide binding]; other site 536230004856 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 536230004857 Precorrin-8X methylmutase; Region: CbiC; pfam02570 536230004858 precorrin-3B synthase; Region: CobG; TIGR02435 536230004859 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230004860 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536230004861 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 536230004862 active site 536230004863 putative homodimer interface [polypeptide binding]; other site 536230004864 SAM binding site [chemical binding]; other site 536230004865 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 536230004866 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 536230004867 S-adenosylmethionine binding site [chemical binding]; other site 536230004868 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 536230004869 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 536230004870 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 536230004871 active site 536230004872 SAM binding site [chemical binding]; other site 536230004873 homodimer interface [polypeptide binding]; other site 536230004874 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 536230004875 putative cyanate transporter; Provisional; Region: cynX; PRK09705 536230004876 MarR family; Region: MarR_2; cl17246 536230004877 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536230004878 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230004879 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 536230004880 dimerization interface [polypeptide binding]; other site 536230004881 ligand binding site [chemical binding]; other site 536230004882 potential frameshift: common BLAST hit: gi|124383788|ref|YP_001026254.1| MarR family transcriptional regulator 536230004883 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230004884 MarR family; Region: MarR_2; pfam12802 536230004885 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 536230004886 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 536230004887 C-terminal domain interface [polypeptide binding]; other site 536230004888 GSH binding site (G-site) [chemical binding]; other site 536230004889 dimer interface [polypeptide binding]; other site 536230004890 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 536230004891 dimer interface [polypeptide binding]; other site 536230004892 N-terminal domain interface [polypeptide binding]; other site 536230004893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230004894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230004895 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 536230004896 putative effector binding pocket; other site 536230004897 putative dimerization interface [polypeptide binding]; other site 536230004898 Domain of unknown function (DUF336); Region: DUF336; pfam03928 536230004899 short chain dehydrogenase; Provisional; Region: PRK09291 536230004900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230004901 NAD(P) binding site [chemical binding]; other site 536230004902 active site 536230004903 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 536230004904 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 536230004905 putative substrate binding site [chemical binding]; other site 536230004906 nucleotide binding site [chemical binding]; other site 536230004907 nucleotide binding site [chemical binding]; other site 536230004908 homodimer interface [polypeptide binding]; other site 536230004909 ornithine carbamoyltransferase; Validated; Region: PRK02102 536230004910 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536230004911 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536230004912 arginine deiminase; Provisional; Region: PRK01388 536230004913 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 536230004914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004915 ABC-ATPase subunit interface; other site 536230004916 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 536230004917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230004918 Walker A/P-loop; other site 536230004919 ATP binding site [chemical binding]; other site 536230004920 Q-loop/lid; other site 536230004921 ABC transporter signature motif; other site 536230004922 Walker B; other site 536230004923 D-loop; other site 536230004924 H-loop/switch region; other site 536230004925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230004926 dimer interface [polypeptide binding]; other site 536230004927 conserved gate region; other site 536230004928 putative PBP binding loops; other site 536230004929 ABC-ATPase subunit interface; other site 536230004930 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 536230004931 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 536230004932 S-adenosylmethionine binding site [chemical binding]; other site 536230004933 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 536230004934 putative substrate translocation pore; other site 536230004935 AMP-binding domain protein; Validated; Region: PRK07529 536230004936 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230004937 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 536230004938 acyl-activating enzyme (AAE) consensus motif; other site 536230004939 putative AMP binding site [chemical binding]; other site 536230004940 putative active site [active] 536230004941 putative CoA binding site [chemical binding]; other site 536230004942 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 536230004943 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230004944 dimer interface [polypeptide binding]; other site 536230004945 putative CheW interface [polypeptide binding]; other site 536230004946 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 536230004947 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536230004948 EamA-like transporter family; Region: EamA; pfam00892 536230004949 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536230004950 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230004951 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230004952 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230004953 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230004954 trimer interface [polypeptide binding]; other site 536230004955 eyelet of channel; other site 536230004956 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230004957 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 536230004958 MbtH-like protein; Region: MbtH; cl01279 536230004959 Cupin-like domain; Region: Cupin_8; pfam13621 536230004960 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 536230004961 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 536230004962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230004963 homodimer interface [polypeptide binding]; other site 536230004964 catalytic residue [active] 536230004965 Methyltransferase domain; Region: Methyltransf_23; pfam13489 536230004966 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 536230004967 S-adenosylmethionine binding site [chemical binding]; other site 536230004968 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 536230004969 active site 536230004970 substrate binding site [chemical binding]; other site 536230004971 cosubstrate binding site; other site 536230004972 catalytic site [active] 536230004973 argininosuccinate synthase; Provisional; Region: PRK13820 536230004974 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 536230004975 ANP binding site [chemical binding]; other site 536230004976 Substrate Binding Site II [chemical binding]; other site 536230004977 Substrate Binding Site I [chemical binding]; other site 536230004978 argininosuccinate lyase; Provisional; Region: PRK00855 536230004979 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230004980 active sites [active] 536230004981 tetramer interface [polypeptide binding]; other site 536230004982 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 536230004983 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 536230004984 putative substrate translocation pore; other site 536230004985 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230004986 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 536230004987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230004988 catalytic residue [active] 536230004989 dimer interface [polypeptide binding]; other site 536230004990 argininosuccinate lyase; Provisional; Region: PRK02186 536230004991 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 536230004992 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230004993 active sites [active] 536230004994 tetramer interface [polypeptide binding]; other site 536230004995 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 536230004996 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 536230004997 tetramer interface [polypeptide binding]; other site 536230004998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230004999 catalytic residue [active] 536230005000 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536230005001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536230005002 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 536230005003 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 536230005004 acyl-activating enzyme (AAE) consensus motif; other site 536230005005 active site 536230005006 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 536230005007 Condensation domain; Region: Condensation; pfam00668 536230005008 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230005009 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230005010 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230005011 acyl-activating enzyme (AAE) consensus motif; other site 536230005012 AMP binding site [chemical binding]; other site 536230005013 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230005014 Condensation domain; Region: Condensation; pfam00668 536230005015 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230005016 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230005017 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230005018 acyl-activating enzyme (AAE) consensus motif; other site 536230005019 AMP binding site [chemical binding]; other site 536230005020 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230005021 Condensation domain; Region: Condensation; pfam00668 536230005022 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230005023 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230005024 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230005025 acyl-activating enzyme (AAE) consensus motif; other site 536230005026 AMP binding site [chemical binding]; other site 536230005027 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230005028 Condensation domain; Region: Condensation; pfam00668 536230005029 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230005030 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230005031 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230005032 acyl-activating enzyme (AAE) consensus motif; other site 536230005033 AMP binding site [chemical binding]; other site 536230005034 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230005035 Condensation domain; Region: Condensation; pfam00668 536230005036 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230005037 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230005038 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230005039 acyl-activating enzyme (AAE) consensus motif; other site 536230005040 AMP binding site [chemical binding]; other site 536230005041 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230005042 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230005043 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 536230005044 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 536230005045 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 536230005046 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 536230005047 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...; Region: Ntn_PGA_like; cd03747 536230005048 active site 536230005049 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230005050 Phosphopantetheine attachment site; Region: PP-binding; cl09936 536230005051 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 536230005052 Kelch motif; Region: Kelch_6; pfam13964 536230005053 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 536230005054 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 536230005055 active site 536230005056 catalytic triad [active] 536230005057 oxyanion hole [active] 536230005058 H-NS histone family; Region: Histone_HNS; pfam00816 536230005059 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 536230005060 potential frameshift: common BLAST hit: gi|172064642|ref|YP_001812292.1| TPR repeat-containing protein 536230005061 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 536230005062 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 536230005063 trimer interface [polypeptide binding]; other site 536230005064 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 536230005065 Haemagglutinin; Region: HIM; pfam05662 536230005066 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 536230005067 YadA-like C-terminal region; Region: YadA; pfam03895 536230005068 Transposase; Region: HTH_Tnp_1; cl17663 536230005069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536230005070 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 536230005071 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230005072 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 536230005073 catalytic residues [active] 536230005074 catalytic nucleophile [active] 536230005075 Presynaptic Site I dimer interface [polypeptide binding]; other site 536230005076 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536230005077 Synaptic Flat tetramer interface [polypeptide binding]; other site 536230005078 Synaptic Site I dimer interface [polypeptide binding]; other site 536230005079 DNA binding site [nucleotide binding] 536230005080 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 536230005081 DNA-binding interface [nucleotide binding]; DNA binding site 536230005082 potential frameshift: common BLAST hit: gi|116687240|ref|YP_840486.1| phage integrase family protein 536230005083 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 536230005084 DNA binding site [nucleotide binding] 536230005085 active site 536230005086 Int/Topo IB signature motif; other site 536230005087 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230005088 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 536230005089 catalytic residues [active] 536230005090 catalytic nucleophile [active] 536230005091 Presynaptic Site I dimer interface [polypeptide binding]; other site 536230005092 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536230005093 Synaptic Flat tetramer interface [polypeptide binding]; other site 536230005094 Synaptic Site I dimer interface [polypeptide binding]; other site 536230005095 DNA binding site [nucleotide binding] 536230005096 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 536230005097 DNA-binding interface [nucleotide binding]; DNA binding site 536230005098 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536230005099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230005100 DNA-binding site [nucleotide binding]; DNA binding site 536230005101 FCD domain; Region: FCD; pfam07729 536230005102 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 536230005103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 536230005104 Integrase core domain; Region: rve; pfam00665 536230005105 Predicted integral membrane protein [Function unknown]; Region: COG5572 536230005106 hypothetical protein; Provisional; Region: PRK05409 536230005107 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 536230005108 Predicted membrane protein [Function unknown]; Region: COG2259 536230005109 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 536230005110 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 536230005111 RNA polymerase sigma factor; Provisional; Region: PRK12536 536230005112 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230005113 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230005114 DNA binding residues [nucleotide binding] 536230005115 Transposase, Mutator family; Region: Transposase_mut; pfam00872 536230005116 Integrase core domain; Region: rve_3; cl15866 536230005117 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 536230005118 active site residue [active] 536230005119 allantoate amidohydrolase; Reviewed; Region: PRK12890 536230005120 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 536230005121 active site 536230005122 metal binding site [ion binding]; metal-binding site 536230005123 dimer interface [polypeptide binding]; other site 536230005124 allantoinase; Region: allantoinase; TIGR03178 536230005125 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 536230005126 active site 536230005127 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 536230005128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230005129 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 536230005130 putative dimerization interface [polypeptide binding]; other site 536230005131 Protein of unknown function (DUF917); Region: DUF917; pfam06032 536230005132 urocanate hydratase; Provisional; Region: PRK05414 536230005133 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230005134 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 536230005135 putative substrate translocation pore; other site 536230005136 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 536230005137 active sites [active] 536230005138 tetramer interface [polypeptide binding]; other site 536230005139 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536230005140 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230005141 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230005142 trimer interface [polypeptide binding]; other site 536230005143 eyelet of channel; other site 536230005144 HTH-like domain; Region: HTH_21; pfam13276 536230005145 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 536230005146 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536230005147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230005148 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 536230005149 active site 536230005150 phosphorylation site [posttranslational modification] 536230005151 intermolecular recognition site; other site 536230005152 dimerization interface [polypeptide binding]; other site 536230005153 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230005154 DNA binding site [nucleotide binding] 536230005155 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...; Region: APSK; cd02027 536230005156 ligand-binding site [chemical binding]; other site 536230005157 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 536230005158 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 536230005159 TPR motif; other site 536230005160 binding surface 536230005161 Methyltransferase domain; Region: Methyltransf_23; pfam13489 536230005162 Methyltransferase domain; Region: Methyltransf_11; pfam08241 536230005163 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 536230005164 binding surface 536230005165 TPR motif; other site 536230005166 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536230005167 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 536230005168 TPR repeat; Region: TPR_11; pfam13414 536230005169 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 536230005170 binding surface 536230005171 TPR motif; other site 536230005172 TPR repeat; Region: TPR_11; pfam13414 536230005173 TPR repeat; Region: TPR_11; pfam13414 536230005174 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 536230005175 TPR motif; other site 536230005176 binding surface 536230005177 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 536230005178 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 536230005179 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 536230005180 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230005181 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230005182 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 536230005183 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536230005184 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 536230005185 Walker A/P-loop; other site 536230005186 ATP binding site [chemical binding]; other site 536230005187 Q-loop/lid; other site 536230005188 ABC transporter signature motif; other site 536230005189 Walker B; other site 536230005190 D-loop; other site 536230005191 H-loop/switch region; other site 536230005192 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005193 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005194 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005195 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005196 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005197 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005198 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005199 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 536230005200 Family description; Region: VCBS; pfam13517 536230005201 Outer membrane efflux protein; Region: OEP; pfam02321 536230005202 Outer membrane efflux protein; Region: OEP; pfam02321 536230005203 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 536230005204 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230005205 ligand binding site [chemical binding]; other site 536230005206 H-NS histone family; Region: Histone_HNS; pfam00816 536230005207 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230005208 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230005209 trimer interface [polypeptide binding]; other site 536230005210 eyelet of channel; other site 536230005211 succinic semialdehyde dehydrogenase; Region: PLN02278 536230005212 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 536230005213 tetramerization interface [polypeptide binding]; other site 536230005214 NAD(P) binding site [chemical binding]; other site 536230005215 catalytic residues [active] 536230005216 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536230005217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230005218 DNA-binding site [nucleotide binding]; DNA binding site 536230005219 FCD domain; Region: FCD; pfam07729 536230005220 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536230005221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230005222 Walker A/P-loop; other site 536230005223 ATP binding site [chemical binding]; other site 536230005224 Q-loop/lid; other site 536230005225 ABC transporter signature motif; other site 536230005226 Walker B; other site 536230005227 D-loop; other site 536230005228 H-loop/switch region; other site 536230005229 TOBE domain; Region: TOBE_2; pfam08402 536230005230 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536230005231 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230005232 dimer interface [polypeptide binding]; other site 536230005233 conserved gate region; other site 536230005234 putative PBP binding loops; other site 536230005235 ABC-ATPase subunit interface; other site 536230005236 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230005237 putative PBP binding loops; other site 536230005238 ABC-ATPase subunit interface; other site 536230005239 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 536230005240 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 536230005241 NIPSNAP; Region: NIPSNAP; pfam07978 536230005242 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536230005243 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 536230005244 NAD(P) binding site [chemical binding]; other site 536230005245 catalytic residues [active] 536230005246 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 536230005247 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 536230005248 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 536230005249 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 536230005250 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 536230005251 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 536230005252 nucleophilic elbow; other site 536230005253 catalytic triad; other site 536230005254 Amino acid synthesis; Region: AA_synth; pfam06684 536230005255 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536230005256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230005257 DNA-binding site [nucleotide binding]; DNA binding site 536230005258 FCD domain; Region: FCD; pfam07729 536230005259 Transposase, Mutator family; Region: Transposase_mut; pfam00872 536230005260 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 536230005261 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 536230005262 nucleophilic elbow; other site 536230005263 catalytic triad; other site 536230005264 transcriptional regulator FimZ; Provisional; Region: PRK09935 536230005265 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 536230005266 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 536230005267 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230005268 dimer interface [polypeptide binding]; other site 536230005269 phosphorylation site [posttranslational modification] 536230005270 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 536230005271 ATP binding site [chemical binding]; other site 536230005272 Mg2+ binding site [ion binding]; other site 536230005273 G-X-G motif; other site 536230005274 Response regulator receiver domain; Region: Response_reg; pfam00072 536230005275 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 536230005276 active site 536230005277 phosphorylation site [posttranslational modification] 536230005278 intermolecular recognition site; other site 536230005279 dimerization interface [polypeptide binding]; other site 536230005280 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230005281 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 536230005282 active site 536230005283 phosphorylation site [posttranslational modification] 536230005284 intermolecular recognition site; other site 536230005285 dimerization interface [polypeptide binding]; other site 536230005286 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230005287 DNA binding residues [nucleotide binding] 536230005288 dimerization interface [polypeptide binding]; other site 536230005289 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 536230005290 Haemagglutinin; Region: HIM; pfam05662 536230005291 YadA-like C-terminal region; Region: YadA; pfam03895 536230005292 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536230005293 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536230005294 PapC N-terminal domain; Region: PapC_N; pfam13954 536230005295 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536230005296 PapC C-terminal domain; Region: PapC_C; pfam13953 536230005297 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536230005298 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536230005299 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536230005300 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536230005301 MEKHLA domain; Region: MEKHLA; pfam08670 536230005302 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 536230005303 potential frameshift: common BLAST hit: gi|76812055|ref|YP_333632.1| EutG protein 536230005304 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 536230005305 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 536230005306 active site 536230005307 metal binding site [ion binding]; metal-binding site 536230005308 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 536230005309 NAD binding site [chemical binding]; other site 536230005310 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 536230005311 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 536230005312 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536230005313 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 536230005314 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 536230005315 iron-sulfur cluster [ion binding]; other site 536230005316 [2Fe-2S] cluster binding site [ion binding]; other site 536230005317 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 536230005318 dihydroxyacetone kinase; Provisional; Region: PRK14479 536230005319 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 536230005320 DAK2 domain; Region: Dak2; pfam02734 536230005321 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 536230005322 dimerization interface [polypeptide binding]; other site 536230005323 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230005324 dimer interface [polypeptide binding]; other site 536230005325 putative CheW interface [polypeptide binding]; other site 536230005326 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536230005327 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536230005328 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536230005329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230005330 Walker A/P-loop; other site 536230005331 ATP binding site [chemical binding]; other site 536230005332 Q-loop/lid; other site 536230005333 ABC transporter signature motif; other site 536230005334 Walker B; other site 536230005335 D-loop; other site 536230005336 H-loop/switch region; other site 536230005337 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 536230005338 ApbE family; Region: ApbE; pfam02424 536230005339 nitrous-oxide reductase; Validated; Region: PRK02888 536230005340 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 536230005341 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 536230005342 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 536230005343 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 536230005344 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536230005345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230005346 Walker A/P-loop; other site 536230005347 ATP binding site [chemical binding]; other site 536230005348 Q-loop/lid; other site 536230005349 ABC transporter signature motif; other site 536230005350 Walker B; other site 536230005351 D-loop; other site 536230005352 H-loop/switch region; other site 536230005353 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 536230005354 NosL; Region: NosL; pfam05573 536230005355 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 536230005356 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 536230005357 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 536230005358 4Fe-4S binding domain; Region: Fer4_5; pfam12801 536230005359 4Fe-4S binding domain; Region: Fer4_5; pfam12801 536230005360 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 536230005361 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 536230005362 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 536230005363 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230005364 ribosomal protein L19 leader 536230005365 YciI-like protein; Reviewed; Region: PRK12866 536230005366 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 536230005367 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 536230005368 oligomer interface [polypeptide binding]; other site 536230005369 metal binding site [ion binding]; metal-binding site 536230005370 metal binding site [ion binding]; metal-binding site 536230005371 putative Cl binding site [ion binding]; other site 536230005372 basic sphincter; other site 536230005373 hydrophobic gate; other site 536230005374 periplasmic entrance; other site 536230005375 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 536230005376 AAA domain; Region: AAA_33; pfam13671 536230005377 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 536230005378 active site 536230005379 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 536230005380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005381 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230005382 Transposase; Region: DDE_Tnp_ISL3; pfam01610 536230005383 Double zinc ribbon; Region: DZR; pfam12773 536230005384 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 536230005385 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 536230005386 AsnC family; Region: AsnC_trans_reg; pfam01037 536230005387 thioester reductase domain; Region: Thioester-redct; TIGR01746 536230005388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230005389 active site 536230005390 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230005391 LTXXQ motif family protein; Region: LTXXQ; pfam07813 536230005392 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 536230005393 PGDYG protein; Region: PGDYG; pfam14083 536230005394 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 536230005395 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 536230005396 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536230005397 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536230005398 DNA binding site [nucleotide binding] 536230005399 domain linker motif; other site 536230005400 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 536230005401 putative ligand binding site [chemical binding]; other site 536230005402 putative dimerization interface [polypeptide binding]; other site 536230005403 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 536230005404 dimerization interface [polypeptide binding]; other site 536230005405 ligand binding site [chemical binding]; other site 536230005406 NADP binding site [chemical binding]; other site 536230005407 catalytic site [active] 536230005408 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 536230005409 D-galactonate transporter; Region: 2A0114; TIGR00893 536230005410 putative substrate translocation pore; other site 536230005411 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230005412 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 536230005413 substrate binding site [chemical binding]; other site 536230005414 ATP binding site [chemical binding]; other site 536230005415 SdpI/YhfL protein family; Region: SdpI; pfam13630 536230005416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230005417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230005418 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 536230005419 dimerization interface [polypeptide binding]; other site 536230005420 Predicted membrane protein [Function unknown]; Region: COG2855 536230005421 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 536230005422 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 536230005423 Cl- selectivity filter; other site 536230005424 Cl- binding residues [ion binding]; other site 536230005425 pore gating glutamate residue; other site 536230005426 dimer interface [polypeptide binding]; other site 536230005427 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 536230005428 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230005429 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230005430 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 536230005431 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230005432 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230005433 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 536230005434 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 536230005435 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 536230005436 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 536230005437 DNA binding residues [nucleotide binding] 536230005438 putative dimer interface [polypeptide binding]; other site 536230005439 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230005440 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 536230005441 Predicted transcriptional regulator [Transcription]; Region: COG3655 536230005442 sequence-specific DNA binding site [nucleotide binding]; other site 536230005443 salt bridge; other site 536230005444 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 536230005445 PAS fold; Region: PAS_4; pfam08448 536230005446 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 536230005447 putative active site [active] 536230005448 heme pocket [chemical binding]; other site 536230005449 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230005450 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230005451 Walker A motif; other site 536230005452 ATP binding site [chemical binding]; other site 536230005453 Walker B motif; other site 536230005454 arginine finger; other site 536230005455 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; cl17393 536230005456 DNA-binding interface [nucleotide binding]; DNA binding site 536230005457 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 536230005458 Putative phosphatase (DUF442); Region: DUF442; cl17385 536230005459 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 536230005460 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 536230005461 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536230005462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230005463 dimer interface [polypeptide binding]; other site 536230005464 conserved gate region; other site 536230005465 putative PBP binding loops; other site 536230005466 ABC-ATPase subunit interface; other site 536230005467 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230005468 dimer interface [polypeptide binding]; other site 536230005469 conserved gate region; other site 536230005470 putative PBP binding loops; other site 536230005471 ABC-ATPase subunit interface; other site 536230005472 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 536230005473 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230005474 Walker A/P-loop; other site 536230005475 ATP binding site [chemical binding]; other site 536230005476 Q-loop/lid; other site 536230005477 ABC transporter signature motif; other site 536230005478 Walker B; other site 536230005479 D-loop; other site 536230005480 H-loop/switch region; other site 536230005481 TOBE domain; Region: TOBE_2; pfam08402 536230005482 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 536230005483 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536230005484 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 536230005485 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 536230005486 Predicted Fe-S protein [General function prediction only]; Region: COG3313 536230005487 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 536230005488 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230005489 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 536230005490 FMN binding site [chemical binding]; other site 536230005491 substrate binding site [chemical binding]; other site 536230005492 putative catalytic residue [active] 536230005493 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 536230005494 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536230005495 NAD binding site [chemical binding]; other site 536230005496 catalytic residues [active] 536230005497 Burkholderia Lethal Factor 1; Region: BPSL1549; cd12812 536230005498 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 536230005499 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230005500 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230005501 ABC transporter; Region: ABC_tran_2; pfam12848 536230005502 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230005503 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 536230005504 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 536230005505 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 536230005506 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230005507 Walker A/P-loop; other site 536230005508 ATP binding site [chemical binding]; other site 536230005509 Q-loop/lid; other site 536230005510 ABC transporter signature motif; other site 536230005511 Walker B; other site 536230005512 D-loop; other site 536230005513 H-loop/switch region; other site 536230005514 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 536230005515 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 536230005516 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 536230005517 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 536230005518 motif II; other site 536230005519 cystathionine beta-lyase; Provisional; Region: PRK07050 536230005520 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 536230005521 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230005522 catalytic residue [active] 536230005523 beta-ketothiolase; Provisional; Region: PRK09051 536230005524 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 536230005525 dimer interface [polypeptide binding]; other site 536230005526 active site 536230005527 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230005528 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 536230005529 substrate binding site [chemical binding]; other site 536230005530 ATP binding site [chemical binding]; other site 536230005531 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 536230005532 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536230005533 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 536230005534 FeS/SAM binding site; other site 536230005535 TRAM domain; Region: TRAM; cl01282 536230005536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 536230005537 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 536230005538 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 536230005539 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 536230005540 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 536230005541 NAD(P) binding site [chemical binding]; other site 536230005542 homotetramer interface [polypeptide binding]; other site 536230005543 homodimer interface [polypeptide binding]; other site 536230005544 active site 536230005545 putative acyltransferase; Provisional; Region: PRK05790 536230005546 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 536230005547 dimer interface [polypeptide binding]; other site 536230005548 active site 536230005549 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 536230005550 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 536230005551 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 536230005552 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 536230005553 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 536230005554 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 536230005555 RNA binding surface [nucleotide binding]; other site 536230005556 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536230005557 active site 536230005558 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 536230005559 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 536230005560 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 536230005561 DEAD_2; Region: DEAD_2; pfam06733 536230005562 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 536230005563 Protein of unknown function (DUF465); Region: DUF465; pfam04325 536230005564 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 536230005565 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 536230005566 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 536230005567 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 536230005568 RNA binding site [nucleotide binding]; other site 536230005569 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 536230005570 potassium uptake protein; Region: kup; TIGR00794 536230005571 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 536230005572 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230005573 active site 536230005574 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 536230005575 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 536230005576 GDP-binding site [chemical binding]; other site 536230005577 ACT binding site; other site 536230005578 IMP binding site; other site 536230005579 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 536230005580 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 536230005581 dimer interface [polypeptide binding]; other site 536230005582 motif 1; other site 536230005583 active site 536230005584 motif 2; other site 536230005585 motif 3; other site 536230005586 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 536230005587 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 536230005588 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 536230005589 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 536230005590 HflK protein; Region: hflK; TIGR01933 536230005591 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 536230005592 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 536230005593 HflX GTPase family; Region: HflX; cd01878 536230005594 G1 box; other site 536230005595 GTP/Mg2+ binding site [chemical binding]; other site 536230005596 Switch I region; other site 536230005597 G2 box; other site 536230005598 G3 box; other site 536230005599 Switch II region; other site 536230005600 G4 box; other site 536230005601 G5 box; other site 536230005602 bacterial Hfq-like; Region: Hfq; cd01716 536230005603 hexamer interface [polypeptide binding]; other site 536230005604 Sm1 motif; other site 536230005605 RNA binding site [nucleotide binding]; other site 536230005606 Sm2 motif; other site 536230005607 GTP-binding protein Der; Reviewed; Region: PRK00093 536230005608 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 536230005609 G1 box; other site 536230005610 GTP/Mg2+ binding site [chemical binding]; other site 536230005611 Switch I region; other site 536230005612 G2 box; other site 536230005613 Switch II region; other site 536230005614 G3 box; other site 536230005615 G4 box; other site 536230005616 G5 box; other site 536230005617 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 536230005618 G1 box; other site 536230005619 GTP/Mg2+ binding site [chemical binding]; other site 536230005620 Switch I region; other site 536230005621 G2 box; other site 536230005622 G3 box; other site 536230005623 Switch II region; other site 536230005624 G4 box; other site 536230005625 G5 box; other site 536230005626 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 536230005627 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 536230005628 Trp docking motif [polypeptide binding]; other site 536230005629 active site 536230005630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 536230005631 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 536230005632 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 536230005633 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 536230005634 dimer interface [polypeptide binding]; other site 536230005635 motif 1; other site 536230005636 active site 536230005637 motif 2; other site 536230005638 motif 3; other site 536230005639 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 536230005640 anticodon binding site; other site 536230005641 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 536230005642 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 536230005643 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 536230005644 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 536230005645 non-specific DNA binding site [nucleotide binding]; other site 536230005646 salt bridge; other site 536230005647 sequence-specific DNA binding site [nucleotide binding]; other site 536230005648 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 536230005649 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 536230005650 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 536230005651 FeS/SAM binding site; other site 536230005652 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 536230005653 active site 536230005654 multimer interface [polypeptide binding]; other site 536230005655 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 536230005656 YccA-like proteins; Region: YccA_like; cd10433 536230005657 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 536230005658 TRAM domain; Region: TRAM; cl01282 536230005659 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 536230005660 S-adenosylmethionine binding site [chemical binding]; other site 536230005661 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 536230005662 putative catalytic site [active] 536230005663 putative metal binding site [ion binding]; other site 536230005664 putative phosphate binding site [ion binding]; other site 536230005665 putative catalytic site [active] 536230005666 putative phosphate binding site [ion binding]; other site 536230005667 putative metal binding site [ion binding]; other site 536230005668 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 536230005669 active site 536230005670 catalytic site [active] 536230005671 substrate binding site [chemical binding]; other site 536230005672 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 536230005673 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 536230005674 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 536230005675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230005676 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230005677 DNA binding residues [nucleotide binding] 536230005678 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536230005679 Peptidase family M23; Region: Peptidase_M23; pfam01551 536230005680 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 536230005681 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 536230005682 S-adenosylmethionine binding site [chemical binding]; other site 536230005683 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 536230005684 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 536230005685 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536230005686 recombination protein RecR; Reviewed; Region: recR; PRK00076 536230005687 RecR protein; Region: RecR; pfam02132 536230005688 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 536230005689 putative active site [active] 536230005690 putative metal-binding site [ion binding]; other site 536230005691 tetramer interface [polypeptide binding]; other site 536230005692 hypothetical protein; Validated; Region: PRK00153 536230005693 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 536230005694 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230005695 Walker A motif; other site 536230005696 ATP binding site [chemical binding]; other site 536230005697 Walker B motif; other site 536230005698 arginine finger; other site 536230005699 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 536230005700 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 536230005701 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536230005702 catalytic residues [active] 536230005703 transcription termination factor Rho; Provisional; Region: rho; PRK09376 536230005704 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 536230005705 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 536230005706 RNA binding site [nucleotide binding]; other site 536230005707 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 536230005708 multimer interface [polypeptide binding]; other site 536230005709 Walker A motif; other site 536230005710 ATP binding site [chemical binding]; other site 536230005711 Walker B motif; other site 536230005712 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 536230005713 DNA binding residues [nucleotide binding] 536230005714 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536230005715 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 536230005716 putative substrate translocation pore; other site 536230005717 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230005718 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 536230005719 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 536230005720 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 536230005721 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 536230005722 putative efflux protein, MATE family; Region: matE; TIGR00797 536230005723 cation binding site [ion binding]; other site 536230005724 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 536230005725 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 536230005726 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 536230005727 DNA binding residues [nucleotide binding] 536230005728 putative dimer interface [polypeptide binding]; other site 536230005729 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 536230005730 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 536230005731 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 536230005732 Clp amino terminal domain; Region: Clp_N; pfam02861 536230005733 Clp amino terminal domain; Region: Clp_N; pfam02861 536230005734 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230005735 Walker A motif; other site 536230005736 ATP binding site [chemical binding]; other site 536230005737 Walker B motif; other site 536230005738 arginine finger; other site 536230005739 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230005740 Walker A motif; other site 536230005741 ATP binding site [chemical binding]; other site 536230005742 Walker B motif; other site 536230005743 arginine finger; other site 536230005744 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536230005745 Transcriptional regulator; Region: Rrf2; cl17282 536230005746 Rrf2 family protein; Region: rrf2_super; TIGR00738 536230005747 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 536230005748 apolar tunnel; other site 536230005749 heme binding site [chemical binding]; other site 536230005750 dimerization interface [polypeptide binding]; other site 536230005751 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 536230005752 MoaE homodimer interface [polypeptide binding]; other site 536230005753 MoaD interaction [polypeptide binding]; other site 536230005754 active site residues [active] 536230005755 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 536230005756 MoaE interaction surface [polypeptide binding]; other site 536230005757 MoeB interaction surface [polypeptide binding]; other site 536230005758 thiocarboxylated glycine; other site 536230005759 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 536230005760 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 536230005761 dimer interface [polypeptide binding]; other site 536230005762 putative functional site; other site 536230005763 putative MPT binding site; other site 536230005764 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 536230005765 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 536230005766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230005767 catalytic residue [active] 536230005768 homoserine dehydrogenase; Provisional; Region: PRK06349 536230005769 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 536230005770 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 536230005771 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 536230005772 aminotransferase AlaT; Validated; Region: PRK09265 536230005773 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 536230005774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230005775 homodimer interface [polypeptide binding]; other site 536230005776 catalytic residue [active] 536230005777 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 536230005778 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 536230005779 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 536230005780 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 536230005781 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536230005782 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 536230005783 inhibitor-cofactor binding pocket; inhibition site 536230005784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230005785 catalytic residue [active] 536230005786 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 536230005787 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 536230005788 Ligand binding site; other site 536230005789 Putative Catalytic site; other site 536230005790 DXD motif; other site 536230005791 putative formyltransferase; Provisional; Region: PRK06988 536230005792 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 536230005793 active site 536230005794 substrate binding site [chemical binding]; other site 536230005795 cosubstrate binding site; other site 536230005796 catalytic site [active] 536230005797 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 536230005798 active site 536230005799 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 536230005800 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 536230005801 NAD binding site [chemical binding]; other site 536230005802 substrate binding site [chemical binding]; other site 536230005803 active site 536230005804 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 536230005805 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 536230005806 putative active site [active] 536230005807 putative catalytic site [active] 536230005808 putative Zn binding site [ion binding]; other site 536230005809 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 536230005810 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536230005811 catalytic triad [active] 536230005812 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 536230005813 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 536230005814 putative active site [active] 536230005815 PhoH-like protein; Region: PhoH; pfam02562 536230005816 Ras GTPase Activating Domain; Region: RasGAP; cl02569 536230005817 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536230005818 NlpC/P60 family; Region: NLPC_P60; pfam00877 536230005819 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 536230005820 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 536230005821 replicative DNA helicase; Provisional; Region: PRK07004 536230005822 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 536230005823 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 536230005824 Walker A motif; other site 536230005825 ATP binding site [chemical binding]; other site 536230005826 Walker B motif; other site 536230005827 DNA binding loops [nucleotide binding] 536230005828 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 536230005829 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 536230005830 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 536230005831 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 536230005832 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 536230005833 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 536230005834 Putative zinc-finger; Region: zf-HC2; pfam13490 536230005835 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 536230005836 RNA polymerase sigma factor; Provisional; Region: PRK12533 536230005837 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230005838 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230005839 DNA binding residues [nucleotide binding] 536230005840 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 536230005841 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536230005842 active site 536230005843 metal binding site [ion binding]; metal-binding site 536230005844 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 536230005845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230005846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230005847 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 536230005848 putative effector binding pocket; other site 536230005849 dimerization interface [polypeptide binding]; other site 536230005850 glyoxylate carboligase; Provisional; Region: PRK11269 536230005851 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230005852 PYR/PP interface [polypeptide binding]; other site 536230005853 dimer interface [polypeptide binding]; other site 536230005854 TPP binding site [chemical binding]; other site 536230005855 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230005856 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 536230005857 TPP-binding site [chemical binding]; other site 536230005858 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 536230005859 tartronate semialdehyde reductase; Provisional; Region: PRK15059 536230005860 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536230005861 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 536230005862 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536230005863 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 536230005864 active site 536230005865 homodimer interface [polypeptide binding]; other site 536230005866 homotetramer interface [polypeptide binding]; other site 536230005867 psiF repeat; Region: PsiF_repeat; pfam07769 536230005868 psiF repeat; Region: PsiF_repeat; pfam07769 536230005869 Domain of unknown function DUF221; Region: DUF221; pfam02714 536230005870 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 536230005871 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 mutant...; Region: GT1_AviGT4_like; cd03802 536230005872 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230005873 putative ADP-binding pocket [chemical binding]; other site 536230005874 Predicted ATPase [General function prediction only]; Region: COG4637 536230005875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230005876 Walker A/P-loop; other site 536230005877 ATP binding site [chemical binding]; other site 536230005878 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 536230005879 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230005880 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 536230005881 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 536230005882 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 536230005883 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536230005884 active site 536230005885 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 536230005886 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230005887 Coenzyme A binding pocket [chemical binding]; other site 536230005888 DNA polymerase III subunit delta'; Validated; Region: PRK06964 536230005889 DNA polymerase III subunit delta'; Validated; Region: PRK08485 536230005890 thymidylate kinase; Validated; Region: tmk; PRK00698 536230005891 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 536230005892 TMP-binding site; other site 536230005893 ATP-binding site [chemical binding]; other site 536230005894 YceG-like family; Region: YceG; pfam02618 536230005895 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 536230005896 dimerization interface [polypeptide binding]; other site 536230005897 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 536230005898 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 536230005899 NRDE protein; Region: NRDE; cl01315 536230005900 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536230005901 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230005902 Coenzyme A binding pocket [chemical binding]; other site 536230005903 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 536230005904 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 536230005905 substrate binding pocket [chemical binding]; other site 536230005906 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 536230005907 Prostaglandin dehydrogenases; Region: PGDH; cd05288 536230005908 NAD(P) binding site [chemical binding]; other site 536230005909 substrate binding site [chemical binding]; other site 536230005910 dimer interface [polypeptide binding]; other site 536230005911 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 536230005912 CoenzymeA binding site [chemical binding]; other site 536230005913 subunit interaction site [polypeptide binding]; other site 536230005914 PHB binding site; other site 536230005915 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 536230005916 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 536230005917 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 536230005918 dimer interface [polypeptide binding]; other site 536230005919 active site 536230005920 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 536230005921 catalytic triad [active] 536230005922 metal binding site [ion binding]; metal-binding site 536230005923 conserved cis-peptide bond; other site 536230005924 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 536230005925 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 536230005926 substrate binding site [chemical binding]; other site 536230005927 oxyanion hole (OAH) forming residues; other site 536230005928 trimer interface [polypeptide binding]; other site 536230005929 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536230005930 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230005931 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230005932 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 536230005933 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 536230005934 dimer interface [polypeptide binding]; other site 536230005935 acyl-activating enzyme (AAE) consensus motif; other site 536230005936 putative active site [active] 536230005937 AMP binding site [chemical binding]; other site 536230005938 putative CoA binding site [chemical binding]; other site 536230005939 Uncharacterized conserved protein [Function unknown]; Region: COG0397 536230005940 hypothetical protein; Validated; Region: PRK00029 536230005941 SelR domain; Region: SelR; pfam01641 536230005942 methionine sulfoxide reductase B; Provisional; Region: PRK00222 536230005943 intracellular septation protein A; Reviewed; Region: PRK00259 536230005944 BolA-like protein; Region: BolA; pfam01722 536230005945 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 536230005946 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536230005947 Predicted acetyltransferase [General function prediction only]; Region: COG3153 536230005948 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 536230005949 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 536230005950 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 536230005951 dimerization interface [polypeptide binding]; other site 536230005952 ATP binding site [chemical binding]; other site 536230005953 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 536230005954 dimerization interface [polypeptide binding]; other site 536230005955 ATP binding site [chemical binding]; other site 536230005956 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 536230005957 putative active site [active] 536230005958 catalytic triad [active] 536230005959 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 536230005960 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 536230005961 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 536230005962 putative substrate binding site [chemical binding]; other site 536230005963 putative ATP binding site [chemical binding]; other site 536230005964 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 536230005965 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 536230005966 active site 536230005967 dimer interface [polypeptide binding]; other site 536230005968 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 536230005969 dimer interface [polypeptide binding]; other site 536230005970 active site 536230005971 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 536230005972 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536230005973 Walker A/P-loop; other site 536230005974 ATP binding site [chemical binding]; other site 536230005975 Q-loop/lid; other site 536230005976 ABC transporter signature motif; other site 536230005977 Walker B; other site 536230005978 D-loop; other site 536230005979 H-loop/switch region; other site 536230005980 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 536230005981 active site 536230005982 catalytic triad [active] 536230005983 oxyanion hole [active] 536230005984 switch loop; other site 536230005985 SurA N-terminal domain; Region: SurA_N_3; cl07813 536230005986 periplasmic folding chaperone; Provisional; Region: PRK10788 536230005987 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536230005988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 536230005989 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 536230005990 30S subunit binding site; other site 536230005991 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 536230005992 Found in ATP-dependent protease La (LON); Region: LON; smart00464 536230005993 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230005994 Walker A motif; other site 536230005995 ATP binding site [chemical binding]; other site 536230005996 Walker B motif; other site 536230005997 arginine finger; other site 536230005998 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536230005999 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 536230006000 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 536230006001 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230006002 Walker A motif; other site 536230006003 ATP binding site [chemical binding]; other site 536230006004 Walker B motif; other site 536230006005 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 536230006006 Clp protease; Region: CLP_protease; pfam00574 536230006007 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 536230006008 oligomer interface [polypeptide binding]; other site 536230006009 active site residues [active] 536230006010 trigger factor; Provisional; Region: tig; PRK01490 536230006011 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536230006012 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 536230006013 Glycerate kinase family; Region: Gly_kinase; cl00841 536230006014 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536230006015 MarR family; Region: MarR_2; pfam12802 536230006016 MarR family; Region: MarR_2; cl17246 536230006017 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 536230006018 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 536230006019 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536230006020 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536230006021 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230006022 dimerization interface [polypeptide binding]; other site 536230006023 DNA binding residues [nucleotide binding] 536230006024 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230006025 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230006026 trimer interface [polypeptide binding]; other site 536230006027 eyelet of channel; other site 536230006028 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 536230006029 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 536230006030 active site 536230006031 Zn binding site [ion binding]; other site 536230006032 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 536230006033 PLD-like domain; Region: PLDc_2; pfam13091 536230006034 putative active site [active] 536230006035 catalytic site [active] 536230006036 Avidin family; Region: Avidin; pfam01382 536230006037 PAAR motif; Region: PAAR_motif; pfam05488 536230006038 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 536230006039 potential frameshift: common BLAST hit: gi|83718143|ref|YP_439265.1| DNA adenine methylase 536230006040 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 536230006041 active site lid residues [active] 536230006042 substrate binding pocket [chemical binding]; other site 536230006043 catalytic residues [active] 536230006044 substrate-Mg2+ binding site; other site 536230006045 aspartate-rich region 1; other site 536230006046 aspartate-rich region 2; other site 536230006047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 536230006048 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 536230006049 osmolarity response regulator; Provisional; Region: ompR; PRK09468 536230006050 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 536230006051 active site 536230006052 phosphorylation site [posttranslational modification] 536230006053 intermolecular recognition site; other site 536230006054 dimerization interface [polypeptide binding]; other site 536230006055 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230006056 DNA binding site [nucleotide binding] 536230006057 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230006058 HAMP domain; Region: HAMP; pfam00672 536230006059 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230006060 dimer interface [polypeptide binding]; other site 536230006061 phosphorylation site [posttranslational modification] 536230006062 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 536230006063 ATP binding site [chemical binding]; other site 536230006064 Mg2+ binding site [ion binding]; other site 536230006065 G-X-G motif; other site 536230006066 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 536230006067 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 536230006068 dimer interface [polypeptide binding]; other site 536230006069 decamer (pentamer of dimers) interface [polypeptide binding]; other site 536230006070 catalytic triad [active] 536230006071 peroxidatic and resolving cysteines [active] 536230006072 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 536230006073 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 536230006074 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 536230006075 homotrimer interaction site [polypeptide binding]; other site 536230006076 zinc binding site [ion binding]; other site 536230006077 CDP-binding sites; other site 536230006078 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 536230006079 substrate binding site; other site 536230006080 dimer interface; other site 536230006081 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 536230006082 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 536230006083 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 536230006084 ATP binding site [chemical binding]; other site 536230006085 putative Mg++ binding site [ion binding]; other site 536230006086 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 536230006087 nucleotide binding region [chemical binding]; other site 536230006088 ATP-binding site [chemical binding]; other site 536230006089 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 536230006090 acetylornithine deacetylase; Provisional; Region: PRK07522 536230006091 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 536230006092 metal binding site [ion binding]; metal-binding site 536230006093 putative dimer interface [polypeptide binding]; other site 536230006094 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 536230006095 tetramer interface [polypeptide binding]; other site 536230006096 hypothetical protein; Provisional; Region: PRK06815 536230006097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230006098 catalytic residue [active] 536230006099 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 536230006100 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 536230006101 Transglycosylase; Region: Transgly; pfam00912 536230006102 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536230006103 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 536230006104 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 536230006105 Tetratricopeptide repeat; Region: TPR_16; pfam13432 536230006106 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 536230006107 TPR motif; other site 536230006108 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 536230006109 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 536230006110 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536230006111 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 536230006112 Dodecin; Region: Dodecin; pfam07311 536230006113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230006114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230006115 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 536230006116 putative substrate binding pocket [chemical binding]; other site 536230006117 putative dimerization interface [polypeptide binding]; other site 536230006118 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 536230006119 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 536230006120 active site 536230006121 putative substrate binding pocket [chemical binding]; other site 536230006122 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 536230006123 active site 536230006124 homotetramer interface [polypeptide binding]; other site 536230006125 Predicted membrane protein [Function unknown]; Region: COG3748 536230006126 Protein of unknown function (DUF989); Region: DUF989; pfam06181 536230006127 Cytochrome c; Region: Cytochrom_C; pfam00034 536230006128 ureidoglycolate hydrolase; Provisional; Region: PRK03606 536230006129 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 536230006130 allantoicase; Provisional; Region: PRK13257 536230006131 Allantoicase repeat; Region: Allantoicase; pfam03561 536230006132 Allantoicase repeat; Region: Allantoicase; pfam03561 536230006133 OHCU decarboxylase; Region: UHCUDC; TIGR03164 536230006134 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 536230006135 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 536230006136 active site 536230006137 catalytic site [active] 536230006138 tetramer interface [polypeptide binding]; other site 536230006139 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 536230006140 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 536230006141 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 536230006142 Na binding site [ion binding]; other site 536230006143 putative substrate binding site [chemical binding]; other site 536230006144 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536230006145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230006146 DNA-binding site [nucleotide binding]; DNA binding site 536230006147 FCD domain; Region: FCD; pfam07729 536230006148 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 536230006149 dimer interface [polypeptide binding]; other site 536230006150 catalytic triad [active] 536230006151 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 536230006152 nucleoside/Zn binding site; other site 536230006153 dimer interface [polypeptide binding]; other site 536230006154 catalytic motif [active] 536230006155 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 536230006156 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 536230006157 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 536230006158 active site 536230006159 metal binding site [ion binding]; metal-binding site 536230006160 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 536230006161 AAA domain; Region: AAA_21; pfam13304 536230006162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230006163 ABC transporter signature motif; other site 536230006164 Walker B; other site 536230006165 D-loop; other site 536230006166 H-loop/switch region; other site 536230006167 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 536230006168 GMP synthase; Reviewed; Region: guaA; PRK00074 536230006169 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 536230006170 AMP/PPi binding site [chemical binding]; other site 536230006171 candidate oxyanion hole; other site 536230006172 catalytic triad [active] 536230006173 potential glutamine specificity residues [chemical binding]; other site 536230006174 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 536230006175 ATP Binding subdomain [chemical binding]; other site 536230006176 Ligand Binding sites [chemical binding]; other site 536230006177 Dimerization subdomain; other site 536230006178 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 536230006179 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536230006180 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 536230006181 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 536230006182 active site 536230006183 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 536230006184 PQQ-like domain; Region: PQQ_2; pfam13360 536230006185 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536230006186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 536230006187 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 536230006188 putative coenzyme Q binding site [chemical binding]; other site 536230006189 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 536230006190 SmpB-tmRNA interface; other site 536230006191 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 536230006192 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 536230006193 phosphoenolpyruvate synthase; Validated; Region: PRK06464 536230006194 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 536230006195 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536230006196 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536230006197 Phytochelatin synthase; Region: Phytochelatin; pfam05023 536230006198 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 536230006199 peptidase domain interface [polypeptide binding]; other site 536230006200 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 536230006201 active site 536230006202 catalytic triad [active] 536230006203 calcium binding site [ion binding]; other site 536230006204 PEP synthetase regulatory protein; Provisional; Region: PRK05339 536230006205 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 536230006206 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 536230006207 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 536230006208 RNA/DNA hybrid binding site [nucleotide binding]; other site 536230006209 active site 536230006210 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 536230006211 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 536230006212 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 536230006213 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 536230006214 active site 536230006215 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 536230006216 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 536230006217 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 536230006218 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 536230006219 trimer interface [polypeptide binding]; other site 536230006220 active site 536230006221 UDP-GlcNAc binding site [chemical binding]; other site 536230006222 lipid binding site [chemical binding]; lipid-binding site 536230006223 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 536230006224 periplasmic chaperone; Provisional; Region: PRK10780 536230006225 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 536230006226 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536230006227 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536230006228 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536230006229 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536230006230 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536230006231 Surface antigen; Region: Bac_surface_Ag; pfam01103 536230006232 zinc metallopeptidase RseP; Provisional; Region: PRK10779 536230006233 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 536230006234 active site 536230006235 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 536230006236 protein binding site [polypeptide binding]; other site 536230006237 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 536230006238 putative substrate binding region [chemical binding]; other site 536230006239 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 536230006240 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 536230006241 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 536230006242 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 536230006243 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 536230006244 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 536230006245 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 536230006246 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 536230006247 catalytic residue [active] 536230006248 putative FPP diphosphate binding site; other site 536230006249 putative FPP binding hydrophobic cleft; other site 536230006250 dimer interface [polypeptide binding]; other site 536230006251 putative IPP diphosphate binding site; other site 536230006252 ribosome recycling factor; Reviewed; Region: frr; PRK00083 536230006253 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 536230006254 hinge region; other site 536230006255 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 536230006256 putative nucleotide binding site [chemical binding]; other site 536230006257 uridine monophosphate binding site [chemical binding]; other site 536230006258 homohexameric interface [polypeptide binding]; other site 536230006259 elongation factor Ts; Provisional; Region: tsf; PRK09377 536230006260 UBA/TS-N domain; Region: UBA; pfam00627 536230006261 Elongation factor TS; Region: EF_TS; pfam00889 536230006262 Elongation factor TS; Region: EF_TS; pfam00889 536230006263 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 536230006264 rRNA interaction site [nucleotide binding]; other site 536230006265 S8 interaction site; other site 536230006266 putative laminin-1 binding site; other site 536230006267 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 536230006268 active site 536230006269 PII uridylyl-transferase; Provisional; Region: PRK03059 536230006270 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536230006271 metal binding triad; other site 536230006272 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536230006273 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536230006274 Zn2+ binding site [ion binding]; other site 536230006275 Mg2+ binding site [ion binding]; other site 536230006276 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 536230006277 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 536230006278 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 536230006279 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 536230006280 RNA binding surface [nucleotide binding]; other site 536230006281 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 536230006282 active site 536230006283 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 536230006284 active site 536230006285 catalytic residues [active] 536230006286 metal binding site [ion binding]; metal-binding site 536230006287 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 536230006288 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 536230006289 nucleotide binding pocket [chemical binding]; other site 536230006290 K-X-D-G motif; other site 536230006291 catalytic site [active] 536230006292 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 536230006293 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 536230006294 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 536230006295 Dimer interface [polypeptide binding]; other site 536230006296 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 536230006297 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 536230006298 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 536230006299 Walker A/P-loop; other site 536230006300 ATP binding site [chemical binding]; other site 536230006301 Q-loop/lid; other site 536230006302 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 536230006303 Q-loop/lid; other site 536230006304 ABC transporter signature motif; other site 536230006305 Walker B; other site 536230006306 D-loop; other site 536230006307 H-loop/switch region; other site 536230006308 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536230006309 EamA-like transporter family; Region: EamA; pfam00892 536230006310 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 536230006311 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 536230006312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230006313 homodimer interface [polypeptide binding]; other site 536230006314 catalytic residue [active] 536230006315 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 536230006316 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 536230006317 trimer interface [polypeptide binding]; other site 536230006318 active site 536230006319 substrate binding site [chemical binding]; other site 536230006320 CoA binding site [chemical binding]; other site 536230006321 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 536230006322 ArsC family; Region: ArsC; pfam03960 536230006323 putative catalytic residues [active] 536230006324 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 536230006325 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 536230006326 metal binding site [ion binding]; metal-binding site 536230006327 dimer interface [polypeptide binding]; other site 536230006328 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 536230006329 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 536230006330 S-adenosylmethionine binding site [chemical binding]; other site 536230006331 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 536230006332 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 536230006333 putative active site [active] 536230006334 catalytic site [active] 536230006335 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 536230006336 putative active site [active] 536230006337 catalytic site [active] 536230006338 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 536230006339 catalytic residues [active] 536230006340 dimer interface [polypeptide binding]; other site 536230006341 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 536230006342 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230006343 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230006344 ABC transporter; Region: ABC_tran_2; pfam12848 536230006345 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230006346 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 536230006347 DNA repair protein RadA; Provisional; Region: PRK11823 536230006348 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 536230006349 Walker A motif/ATP binding site; other site 536230006350 ATP binding site [chemical binding]; other site 536230006351 Walker B motif; other site 536230006352 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 536230006353 alanine racemase; Reviewed; Region: dadX; PRK03646 536230006354 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 536230006355 active site 536230006356 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536230006357 substrate binding site [chemical binding]; other site 536230006358 catalytic residues [active] 536230006359 dimer interface [polypeptide binding]; other site 536230006360 lysophospholipid transporter LplT; Provisional; Region: PRK11195 536230006361 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 536230006362 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 536230006363 dimer interface [polypeptide binding]; other site 536230006364 substrate binding site [chemical binding]; other site 536230006365 ATP binding site [chemical binding]; other site 536230006366 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 536230006367 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 536230006368 Fe-S cluster binding site [ion binding]; other site 536230006369 active site 536230006370 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 536230006371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230006372 Coenzyme A binding pocket [chemical binding]; other site 536230006373 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 536230006374 Glycoprotease family; Region: Peptidase_M22; pfam00814 536230006375 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 536230006376 acyl-CoA binding pocket [chemical binding]; other site 536230006377 CoA binding site [chemical binding]; other site 536230006378 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 536230006379 DEAD-like helicases superfamily; Region: DEXDc; smart00487 536230006380 ATP binding site [chemical binding]; other site 536230006381 Mg++ binding site [ion binding]; other site 536230006382 motif III; other site 536230006383 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 536230006384 nucleotide binding region [chemical binding]; other site 536230006385 ATP-binding site [chemical binding]; other site 536230006386 isocitrate lyase; Provisional; Region: PRK15063 536230006387 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 536230006388 tetramer interface [polypeptide binding]; other site 536230006389 active site 536230006390 Mg2+/Mn2+ binding site [ion binding]; other site 536230006391 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 536230006392 Ligand Binding Site [chemical binding]; other site 536230006393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230006394 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 536230006395 putative effector binding pocket; other site 536230006396 dimerization interface [polypeptide binding]; other site 536230006397 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 536230006398 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 536230006399 motif II; other site 536230006400 malate synthase A; Region: malate_syn_A; TIGR01344 536230006401 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 536230006402 active site 536230006403 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 536230006404 putative active site pocket [active] 536230006405 dimerization interface [polypeptide binding]; other site 536230006406 putative catalytic residue [active] 536230006407 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 536230006408 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536230006409 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230006410 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230006411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230006412 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230006413 Coenzyme A binding pocket [chemical binding]; other site 536230006414 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 536230006415 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536230006416 active site 536230006417 HIGH motif; other site 536230006418 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536230006419 active site 536230006420 KMSKS motif; other site 536230006421 hypothetical protein; Provisional; Region: PRK10279 536230006422 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 536230006423 nucleophile elbow; other site 536230006424 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536230006425 NlpC/P60 family; Region: NLPC_P60; pfam00877 536230006426 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 536230006427 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536230006428 Walker A/P-loop; other site 536230006429 ATP binding site [chemical binding]; other site 536230006430 Q-loop/lid; other site 536230006431 ABC transporter signature motif; other site 536230006432 Walker B; other site 536230006433 D-loop; other site 536230006434 H-loop/switch region; other site 536230006435 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230006436 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536230006437 Walker A/P-loop; other site 536230006438 ATP binding site [chemical binding]; other site 536230006439 Q-loop/lid; other site 536230006440 ABC transporter signature motif; other site 536230006441 Walker B; other site 536230006442 D-loop; other site 536230006443 H-loop/switch region; other site 536230006444 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230006445 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 536230006446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230006447 dimer interface [polypeptide binding]; other site 536230006448 conserved gate region; other site 536230006449 putative PBP binding loops; other site 536230006450 ABC-ATPase subunit interface; other site 536230006451 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 536230006452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230006453 dimer interface [polypeptide binding]; other site 536230006454 conserved gate region; other site 536230006455 putative PBP binding loops; other site 536230006456 ABC-ATPase subunit interface; other site 536230006457 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 536230006458 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 536230006459 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 536230006460 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 536230006461 NAD binding site [chemical binding]; other site 536230006462 homotetramer interface [polypeptide binding]; other site 536230006463 homodimer interface [polypeptide binding]; other site 536230006464 substrate binding site [chemical binding]; other site 536230006465 active site 536230006466 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 536230006467 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 536230006468 putative [Fe4-S4] binding site [ion binding]; other site 536230006469 putative molybdopterin cofactor binding site [chemical binding]; other site 536230006470 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 536230006471 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 536230006472 putative molybdopterin cofactor binding site; other site 536230006473 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 536230006474 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 536230006475 FAD binding pocket [chemical binding]; other site 536230006476 FAD binding motif [chemical binding]; other site 536230006477 phosphate binding motif [ion binding]; other site 536230006478 beta-alpha-beta structure motif; other site 536230006479 NAD binding pocket [chemical binding]; other site 536230006480 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 536230006481 Ferredoxin [Energy production and conversion]; Region: COG1146 536230006482 4Fe-4S binding domain; Region: Fer4; pfam00037 536230006483 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 536230006484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230006485 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 536230006486 active site 536230006487 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 536230006488 argininosuccinate lyase; Provisional; Region: PRK02186 536230006489 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 536230006490 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536230006491 active sites [active] 536230006492 tetramer interface [polypeptide binding]; other site 536230006493 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 536230006494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230006495 catalytic residue [active] 536230006496 dimer interface [polypeptide binding]; other site 536230006497 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 536230006498 G1 box; other site 536230006499 GTP/Mg2+ binding site [chemical binding]; other site 536230006500 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 536230006501 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536230006502 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 536230006503 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 536230006504 Active Sites [active] 536230006505 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 536230006506 active site 536230006507 phosphoserine aminotransferase; Provisional; Region: PRK12462 536230006508 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230006509 catalytic residue [active] 536230006510 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 536230006511 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 536230006512 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 536230006513 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 536230006514 PYR/PP interface [polypeptide binding]; other site 536230006515 dimer interface [polypeptide binding]; other site 536230006516 TPP binding site [chemical binding]; other site 536230006517 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 536230006518 TPP-binding site [chemical binding]; other site 536230006519 dimer interface [polypeptide binding]; other site 536230006520 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 536230006521 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 536230006522 S-adenosylmethionine binding site [chemical binding]; other site 536230006523 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 536230006524 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 536230006525 active site 536230006526 iron coordination sites [ion binding]; other site 536230006527 substrate binding pocket [chemical binding]; other site 536230006528 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 536230006529 Condensation domain; Region: Condensation; pfam00668 536230006530 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 536230006531 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 536230006532 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230006533 acyl-activating enzyme (AAE) consensus motif; other site 536230006534 AMP binding site [chemical binding]; other site 536230006535 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230006536 Condensation domain; Region: Condensation; pfam00668 536230006537 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 536230006538 Condensation domain; Region: Condensation; pfam00668 536230006539 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230006540 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230006541 acyl-activating enzyme (AAE) consensus motif; other site 536230006542 AMP binding site [chemical binding]; other site 536230006543 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230006544 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 536230006545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 536230006546 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 536230006547 Transmembrane secretion effector; Region: MFS_3; pfam05977 536230006548 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 536230006549 putative substrate translocation pore; other site 536230006550 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536230006551 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 536230006552 acyl-activating enzyme (AAE) consensus motif; other site 536230006553 AMP binding site [chemical binding]; other site 536230006554 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536230006555 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...; Region: APSK; cd02027 536230006556 ligand-binding site [chemical binding]; other site 536230006557 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 536230006558 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230006559 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230006560 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 536230006561 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 536230006562 active site 536230006563 catalytic triad [active] 536230006564 oxyanion hole [active] 536230006565 Autotransporter beta-domain; Region: Autotransporter; smart00869 536230006566 aspartate kinase; Reviewed; Region: PRK06635 536230006567 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 536230006568 putative nucleotide binding site [chemical binding]; other site 536230006569 putative catalytic residues [active] 536230006570 putative Mg ion binding site [ion binding]; other site 536230006571 putative aspartate binding site [chemical binding]; other site 536230006572 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 536230006573 putative allosteric regulatory site; other site 536230006574 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 536230006575 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 536230006576 Ligand Binding Site [chemical binding]; other site 536230006577 TilS substrate binding domain; Region: TilS; pfam09179 536230006578 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 536230006579 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 536230006580 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 536230006581 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536230006582 endonuclease III; Region: ENDO3c; smart00478 536230006583 minor groove reading motif; other site 536230006584 helix-hairpin-helix signature motif; other site 536230006585 substrate binding pocket [chemical binding]; other site 536230006586 active site 536230006587 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 536230006588 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536230006589 active site 536230006590 HIGH motif; other site 536230006591 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536230006592 KMSKS motif; other site 536230006593 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 536230006594 tRNA binding surface [nucleotide binding]; other site 536230006595 anticodon binding site; other site 536230006596 TPR repeat; Region: TPR_11; pfam13414 536230006597 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 536230006598 binding surface 536230006599 TPR motif; other site 536230006600 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 536230006601 substrate binding site [chemical binding]; other site 536230006602 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 536230006603 substrate binding site [chemical binding]; other site 536230006604 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536230006605 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 536230006606 putative active site [active] 536230006607 putative metal binding site [ion binding]; other site 536230006608 serine O-acetyltransferase; Region: cysE; TIGR01172 536230006609 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 536230006610 trimer interface [polypeptide binding]; other site 536230006611 active site 536230006612 substrate binding site [chemical binding]; other site 536230006613 CoA binding site [chemical binding]; other site 536230006614 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 536230006615 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 536230006616 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 536230006617 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 536230006618 active site 536230006619 dimerization interface [polypeptide binding]; other site 536230006620 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 536230006621 PIN domain; Region: PIN_3; pfam13470 536230006622 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 536230006623 PAAR motif; Region: PAAR_motif; pfam05488 536230006624 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 536230006625 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 536230006626 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 536230006627 catalytic residue [active] 536230006628 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 specific...; Region: RICIN; cd00161 536230006629 putative sugar binding sites [chemical binding]; other site 536230006630 Q-X-W motif; other site 536230006631 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 536230006632 Phage Tail Protein X; Region: Phage_tail_X; cl02088 536230006633 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 536230006634 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 536230006635 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 536230006636 Phage tail tube protein FII; Region: Phage_tube; pfam04985 536230006637 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 536230006638 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536230006639 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 536230006640 Baseplate J-like protein; Region: Baseplate_J; cl01294 536230006641 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 536230006642 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 536230006643 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 536230006644 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 536230006645 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 536230006646 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 536230006647 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 536230006648 Clp protease; Region: CLP_protease; pfam00574 536230006649 oligomer interface [polypeptide binding]; other site 536230006650 active site residues [active] 536230006651 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 536230006652 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 536230006653 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 536230006654 Uncharacterized archaeal Zn-finger protein [General function prediction only]; Region: COG1326 536230006655 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 536230006656 Virulence-associated protein E; Region: VirE; pfam05272 536230006657 Helix-turn-helix domains; Region: HTH; cl00088 536230006658 ParB-like nuclease domain; Region: ParBc; cl02129 536230006659 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 536230006660 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 536230006661 active site 536230006662 DNA binding site [nucleotide binding] 536230006663 Int/Topo IB signature motif; other site 536230006664 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 536230006665 MutS domain I; Region: MutS_I; pfam01624 536230006666 MutS domain II; Region: MutS_II; pfam05188 536230006667 MutS domain III; Region: MutS_III; pfam05192 536230006668 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 536230006669 Walker A/P-loop; other site 536230006670 ATP binding site [chemical binding]; other site 536230006671 Q-loop/lid; other site 536230006672 ABC transporter signature motif; other site 536230006673 Walker B; other site 536230006674 D-loop; other site 536230006675 H-loop/switch region; other site 536230006676 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 536230006677 Uncharacterized conserved protein [Function unknown]; Region: COG2850 536230006678 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 536230006679 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 536230006680 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 536230006681 dihydrodipicolinate synthase; Region: dapA; TIGR00674 536230006682 dimer interface [polypeptide binding]; other site 536230006683 active site 536230006684 catalytic residue [active] 536230006685 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536230006686 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 536230006687 active site 536230006688 HIGH motif; other site 536230006689 dimer interface [polypeptide binding]; other site 536230006690 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230006691 active site 536230006692 KMSKS motif; other site 536230006693 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 536230006694 Peptidase family M50; Region: Peptidase_M50; pfam02163 536230006695 active site 536230006696 putative substrate binding region [chemical binding]; other site 536230006697 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 536230006698 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 536230006699 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 536230006700 active site 536230006701 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 536230006702 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230006703 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536230006704 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 536230006705 catalytic site [active] 536230006706 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 536230006707 dinuclear metal binding motif [ion binding]; other site 536230006708 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 536230006709 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 536230006710 trimer interface [polypeptide binding]; other site 536230006711 putative metal binding site [ion binding]; other site 536230006712 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 536230006713 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 536230006714 dimerization interface [polypeptide binding]; other site 536230006715 domain crossover interface; other site 536230006716 redox-dependent activation switch; other site 536230006717 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 536230006718 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 536230006719 enolase; Provisional; Region: eno; PRK00077 536230006720 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 536230006721 dimer interface [polypeptide binding]; other site 536230006722 metal binding site [ion binding]; metal-binding site 536230006723 substrate binding pocket [chemical binding]; other site 536230006724 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 536230006725 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536230006726 CTP synthetase; Validated; Region: pyrG; PRK05380 536230006727 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 536230006728 Catalytic site [active] 536230006729 active site 536230006730 UTP binding site [chemical binding]; other site 536230006731 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 536230006732 active site 536230006733 putative oxyanion hole; other site 536230006734 catalytic triad [active] 536230006735 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230006736 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 536230006737 nucleophilic elbow; other site 536230006738 catalytic triad; other site 536230006739 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 536230006740 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 536230006741 Competence protein; Region: Competence; pfam03772 536230006742 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 536230006743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536230006744 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536230006745 active site 536230006746 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 536230006747 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536230006748 Walker A/P-loop; other site 536230006749 ATP binding site [chemical binding]; other site 536230006750 Q-loop/lid; other site 536230006751 ABC transporter signature motif; other site 536230006752 Walker B; other site 536230006753 D-loop; other site 536230006754 H-loop/switch region; other site 536230006755 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 536230006756 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536230006757 FtsX-like permease family; Region: FtsX; pfam02687 536230006758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 536230006759 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 536230006760 DHH family; Region: DHH; pfam01368 536230006761 DHHA1 domain; Region: DHHA1; pfam02272 536230006762 peptide chain release factor 2; Validated; Region: prfB; PRK00578 536230006763 This domain is found in peptide chain release factors; Region: PCRF; smart00937 536230006764 RF-1 domain; Region: RF-1; pfam00472 536230006765 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 536230006766 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 536230006767 dimer interface [polypeptide binding]; other site 536230006768 putative anticodon binding site; other site 536230006769 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 536230006770 motif 1; other site 536230006771 active site 536230006772 motif 2; other site 536230006773 motif 3; other site 536230006774 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 536230006775 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 536230006776 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 536230006777 catalytic loop [active] 536230006778 iron binding site [ion binding]; other site 536230006779 chaperone protein HscA; Provisional; Region: hscA; PRK05183 536230006780 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 536230006781 nucleotide binding site [chemical binding]; other site 536230006782 putative NEF/HSP70 interaction site [polypeptide binding]; other site 536230006783 SBD interface [polypeptide binding]; other site 536230006784 co-chaperone HscB; Provisional; Region: hscB; PRK03578 536230006785 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 536230006786 HSP70 interaction site [polypeptide binding]; other site 536230006787 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 536230006788 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 536230006789 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 536230006790 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 536230006791 trimerization site [polypeptide binding]; other site 536230006792 active site 536230006793 cysteine desulfurase; Provisional; Region: PRK14012 536230006794 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 536230006795 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230006796 catalytic residue [active] 536230006797 Predicted transcriptional regulator [Transcription]; Region: COG1959 536230006798 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 536230006799 Low molecular weight phosphatase family; Region: LMWPc; cd00115 536230006800 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 536230006801 active site 536230006802 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 536230006803 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 536230006804 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 536230006805 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 536230006806 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 536230006807 Cysteine-rich domain; Region: CCG; pfam02754 536230006808 Cysteine-rich domain; Region: CCG; pfam02754 536230006809 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536230006810 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230006811 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230006812 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 536230006813 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536230006814 Phasin protein; Region: Phasin_2; pfam09361 536230006815 Transposase domain (DUF772); Region: DUF772; pfam05598 536230006816 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536230006817 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536230006818 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 536230006819 E3 interaction surface; other site 536230006820 lipoyl attachment site [posttranslational modification]; other site 536230006821 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 536230006822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536230006823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536230006824 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536230006825 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 536230006826 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 536230006827 E3 interaction surface; other site 536230006828 lipoyl attachment site [posttranslational modification]; other site 536230006829 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 536230006830 E3 interaction surface; other site 536230006831 lipoyl attachment site [posttranslational modification]; other site 536230006832 e3 binding domain; Region: E3_binding; pfam02817 536230006833 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 536230006834 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 536230006835 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 536230006836 dimer interface [polypeptide binding]; other site 536230006837 TPP-binding site [chemical binding]; other site 536230006838 PAS domain S-box; Region: sensory_box; TIGR00229 536230006839 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 536230006840 putative active site [active] 536230006841 heme pocket [chemical binding]; other site 536230006842 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230006843 dimer interface [polypeptide binding]; other site 536230006844 phosphorylation site [posttranslational modification] 536230006845 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 536230006846 ATP binding site [chemical binding]; other site 536230006847 Mg2+ binding site [ion binding]; other site 536230006848 G-X-G motif; other site 536230006849 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 536230006850 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 536230006851 active site 536230006852 phosphorylation site [posttranslational modification] 536230006853 intermolecular recognition site; other site 536230006854 dimerization interface [polypeptide binding]; other site 536230006855 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230006856 DNA binding residues [nucleotide binding] 536230006857 dimerization interface [polypeptide binding]; other site 536230006858 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 536230006859 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 536230006860 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 536230006861 homodimer interface [polypeptide binding]; other site 536230006862 NADP binding site [chemical binding]; other site 536230006863 substrate binding site [chemical binding]; other site 536230006864 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 536230006865 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 536230006866 active site 536230006867 Zn binding site [ion binding]; other site 536230006868 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 536230006869 active site 536230006870 DNA polymerase IV; Validated; Region: PRK02406 536230006871 DNA binding site [nucleotide binding] 536230006872 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 536230006873 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 536230006874 putative substrate translocation pore; other site 536230006875 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 536230006876 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 536230006877 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 536230006878 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 536230006879 [4Fe-4S] binding site [ion binding]; other site 536230006880 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 536230006881 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 536230006882 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 536230006883 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 536230006884 molybdopterin cofactor binding site; other site 536230006885 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 536230006886 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 536230006887 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 536230006888 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 536230006889 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 536230006890 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 536230006891 dimerization interface [polypeptide binding]; other site 536230006892 GAF domain; Region: GAF; pfam01590 536230006893 Histidine kinase; Region: HisKA_3; pfam07730 536230006894 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 536230006895 ATP binding site [chemical binding]; other site 536230006896 Mg2+ binding site [ion binding]; other site 536230006897 G-X-G motif; other site 536230006898 transcriptional regulator NarL; Provisional; Region: PRK10651 536230006899 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 536230006900 active site 536230006901 phosphorylation site [posttranslational modification] 536230006902 intermolecular recognition site; other site 536230006903 dimerization interface [polypeptide binding]; other site 536230006904 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230006905 DNA binding residues [nucleotide binding] 536230006906 dimerization interface [polypeptide binding]; other site 536230006907 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 536230006908 putative catalytic site [active] 536230006909 putative phosphate binding site [ion binding]; other site 536230006910 active site 536230006911 metal binding site A [ion binding]; metal-binding site 536230006912 DNA binding site [nucleotide binding] 536230006913 putative AP binding site [nucleotide binding]; other site 536230006914 putative metal binding site B [ion binding]; other site 536230006915 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 536230006916 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 536230006917 active site 536230006918 phosphorylation site [posttranslational modification] 536230006919 intermolecular recognition site; other site 536230006920 dimerization interface [polypeptide binding]; other site 536230006921 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230006922 Walker A motif; other site 536230006923 ATP binding site [chemical binding]; other site 536230006924 Walker B motif; other site 536230006925 arginine finger; other site 536230006926 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536230006927 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 536230006928 PAS domain; Region: PAS; smart00091 536230006929 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230006930 dimer interface [polypeptide binding]; other site 536230006931 phosphorylation site [posttranslational modification] 536230006932 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 536230006933 ATP binding site [chemical binding]; other site 536230006934 Mg2+ binding site [ion binding]; other site 536230006935 G-X-G motif; other site 536230006936 glutamine synthetase; Provisional; Region: glnA; PRK09469 536230006937 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 536230006938 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 536230006939 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 536230006940 active site residue [active] 536230006941 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 536230006942 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 536230006943 putative MPT binding site; other site 536230006944 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 536230006945 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 536230006946 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 536230006947 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 536230006948 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 536230006949 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 536230006950 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 536230006951 ATP binding site [chemical binding]; other site 536230006952 putative Mg++ binding site [ion binding]; other site 536230006953 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 536230006954 nucleotide binding region [chemical binding]; other site 536230006955 ATP-binding site [chemical binding]; other site 536230006956 Helicase associated domain (HA2); Region: HA2; pfam04408 536230006957 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 536230006958 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 536230006959 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 536230006960 N-acetylglutamate synthase; Validated; Region: PRK05279 536230006961 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 536230006962 putative feedback inhibition sensing region; other site 536230006963 putative nucleotide binding site [chemical binding]; other site 536230006964 putative substrate binding site [chemical binding]; other site 536230006965 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230006966 Coenzyme A binding pocket [chemical binding]; other site 536230006967 oxidative damage protection protein; Provisional; Region: PRK05408 536230006968 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 536230006969 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230006970 putative substrate translocation pore; other site 536230006971 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 536230006972 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536230006973 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230006974 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230006975 active site 536230006976 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536230006977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230006978 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 536230006979 dimerization interface [polypeptide binding]; other site 536230006980 putative aminotransferase; Validated; Region: PRK07480 536230006981 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 536230006982 inhibitor-cofactor binding pocket; inhibition site 536230006983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230006984 catalytic residue [active] 536230006985 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 536230006986 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 536230006987 Peptidase C26; Region: Peptidase_C26; pfam07722 536230006988 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 536230006989 catalytic triad [active] 536230006990 N-formylglutamate amidohydrolase; Region: FGase; cl01522 536230006991 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 536230006992 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 536230006993 active site 536230006994 imidazolonepropionase; Validated; Region: PRK09356 536230006995 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 536230006996 active site 536230006997 HutD; Region: HutD; pfam05962 536230006998 urocanate hydratase; Provisional; Region: PRK05414 536230006999 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 536230007000 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230007001 DNA-binding site [nucleotide binding]; DNA binding site 536230007002 UTRA domain; Region: UTRA; pfam07702 536230007003 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 536230007004 active sites [active] 536230007005 tetramer interface [polypeptide binding]; other site 536230007006 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 536230007007 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 536230007008 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 536230007009 Autoinducer binding domain; Region: Autoind_bind; pfam03472 536230007010 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 536230007011 DNA binding residues [nucleotide binding] 536230007012 dimerization interface [polypeptide binding]; other site 536230007013 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...; Region: APSK; cd02027 536230007014 ligand-binding site [chemical binding]; other site 536230007015 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 536230007016 DNA photolyase; Region: DNA_photolyase; pfam00875 536230007017 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 536230007018 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230007019 Di-iron ligands [ion binding]; other site 536230007020 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 536230007021 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 536230007022 NnrS protein; Region: NnrS; pfam05940 536230007023 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 536230007024 Class III ribonucleotide reductase; Region: RNR_III; cd01675 536230007025 effector binding site; other site 536230007026 active site 536230007027 Zn binding site [ion binding]; other site 536230007028 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 536230007029 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 536230007030 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 536230007031 FeS/SAM binding site; other site 536230007032 DGC domain; Region: DGC; pfam08859 536230007033 SCP-2 sterol transfer family; Region: SCP2; cl01225 536230007034 putative protease; Provisional; Region: PRK15447 536230007035 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 536230007036 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 536230007037 Peptidase family U32; Region: Peptidase_U32; pfam01136 536230007038 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 536230007039 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 536230007040 FMN binding site [chemical binding]; other site 536230007041 substrate binding site [chemical binding]; other site 536230007042 putative catalytic residue [active] 536230007043 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 536230007044 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 536230007045 ligand binding site [chemical binding]; other site 536230007046 flexible hinge region; other site 536230007047 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 536230007048 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 536230007049 HemN C-terminal domain; Region: HemN_C; pfam06969 536230007050 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 536230007051 dimerization interface [polypeptide binding]; other site 536230007052 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230007053 dimer interface [polypeptide binding]; other site 536230007054 putative CheW interface [polypeptide binding]; other site 536230007055 NnrS protein; Region: NnrS; pfam05940 536230007056 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 536230007057 putative ABC transporter; Region: ycf24; CHL00085 536230007058 FeS assembly ATPase SufC; Region: sufC; TIGR01978 536230007059 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 536230007060 Walker A/P-loop; other site 536230007061 ATP binding site [chemical binding]; other site 536230007062 Q-loop/lid; other site 536230007063 ABC transporter signature motif; other site 536230007064 Walker B; other site 536230007065 D-loop; other site 536230007066 H-loop/switch region; other site 536230007067 FeS assembly protein SufD; Region: sufD; TIGR01981 536230007068 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 536230007069 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 536230007070 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 536230007071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230007072 catalytic residue [active] 536230007073 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 536230007074 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 536230007075 trimerization site [polypeptide binding]; other site 536230007076 active site 536230007077 Domain of unknown function DUF59; Region: DUF59; cl00941 536230007078 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 536230007079 Transcriptional regulator; Region: Rrf2; cl17282 536230007080 Rrf2 family protein; Region: rrf2_super; TIGR00738 536230007081 Hemerythrin; Region: Hemerythrin; cd12107 536230007082 Fe binding site [ion binding]; other site 536230007083 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 536230007084 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 536230007085 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 536230007086 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 536230007087 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 536230007088 D-pathway; other site 536230007089 Putative ubiquinol binding site [chemical binding]; other site 536230007090 Low-spin heme (heme b) binding site [chemical binding]; other site 536230007091 Putative water exit pathway; other site 536230007092 Binuclear center (heme o3/CuB) [ion binding]; other site 536230007093 K-pathway; other site 536230007094 Putative proton exit pathway; other site 536230007095 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 536230007096 Subunit I/III interface [polypeptide binding]; other site 536230007097 Subunit III/IV interface [polypeptide binding]; other site 536230007098 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 536230007099 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 536230007100 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230007101 putative di-iron ligands [ion binding]; other site 536230007102 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 536230007103 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230007104 substrate binding pocket [chemical binding]; other site 536230007105 membrane-bound complex binding site; other site 536230007106 hinge residues; other site 536230007107 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 536230007108 dimer interface [polypeptide binding]; other site 536230007109 N-terminal domain interface [polypeptide binding]; other site 536230007110 substrate binding pocket (H-site) [chemical binding]; other site 536230007111 succinylglutamate desuccinylase; Provisional; Region: PRK05324 536230007112 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 536230007113 active site 536230007114 Zn binding site [ion binding]; other site 536230007115 succinylarginine dihydrolase; Provisional; Region: PRK13281 536230007116 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 536230007117 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 536230007118 NAD(P) binding site [chemical binding]; other site 536230007119 catalytic residues [active] 536230007120 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 536230007121 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 536230007122 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 536230007123 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 536230007124 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 536230007125 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 536230007126 inhibitor-cofactor binding pocket; inhibition site 536230007127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230007128 catalytic residue [active] 536230007129 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230007130 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 536230007131 conserved cys residue [active] 536230007132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230007133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230007134 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 536230007135 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536230007136 Walker A/P-loop; other site 536230007137 ATP binding site [chemical binding]; other site 536230007138 Q-loop/lid; other site 536230007139 ABC transporter signature motif; other site 536230007140 Walker B; other site 536230007141 D-loop; other site 536230007142 H-loop/switch region; other site 536230007143 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230007144 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230007145 dimer interface [polypeptide binding]; other site 536230007146 conserved gate region; other site 536230007147 putative PBP binding loops; other site 536230007148 ABC-ATPase subunit interface; other site 536230007149 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230007150 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230007151 dimer interface [polypeptide binding]; other site 536230007152 conserved gate region; other site 536230007153 putative PBP binding loops; other site 536230007154 ABC-ATPase subunit interface; other site 536230007155 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 536230007156 putative membrane protein; Region: HpnL; TIGR03476 536230007157 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 536230007158 putative active site [active] 536230007159 YdjC motif; other site 536230007160 Mg binding site [ion binding]; other site 536230007161 putative homodimer interface [polypeptide binding]; other site 536230007162 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 536230007163 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 536230007164 B12 binding site [chemical binding]; other site 536230007165 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 536230007166 FeS/SAM binding site; other site 536230007167 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 536230007168 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 536230007169 ligand binding site; other site 536230007170 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 536230007171 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 536230007172 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 536230007173 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 536230007174 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536230007175 pyridoxamine kinase; Validated; Region: PRK05756 536230007176 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 536230007177 dimer interface [polypeptide binding]; other site 536230007178 pyridoxal binding site [chemical binding]; other site 536230007179 ATP binding site [chemical binding]; other site 536230007180 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 536230007181 Phosphoesterase family; Region: Phosphoesterase; pfam04185 536230007182 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230007183 Domain of unknown function (DUF756); Region: DUF756; pfam05506 536230007184 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230007185 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 536230007186 dimerization interface [polypeptide binding]; other site 536230007187 ligand binding site [chemical binding]; other site 536230007188 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 536230007189 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 536230007190 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 mutant...; Region: GT1_AviGT4_like; cd03802 536230007191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230007192 putative ADP-binding pocket [chemical binding]; other site 536230007193 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 536230007194 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536230007195 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 536230007196 Walker A/P-loop; other site 536230007197 ATP binding site [chemical binding]; other site 536230007198 Q-loop/lid; other site 536230007199 ABC transporter signature motif; other site 536230007200 Walker B; other site 536230007201 D-loop; other site 536230007202 H-loop/switch region; other site 536230007203 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 536230007204 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 536230007205 active site 536230007206 homotetramer interface [polypeptide binding]; other site 536230007207 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 536230007208 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 536230007209 active site 536230007210 motif I; other site 536230007211 motif II; other site 536230007212 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 536230007213 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 536230007214 Cu(I) binding site [ion binding]; other site 536230007215 Protein of unknown function (DUF461); Region: DUF461; pfam04314 536230007216 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 536230007217 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536230007218 Pirin-related protein [General function prediction only]; Region: COG1741 536230007219 Pirin; Region: Pirin; pfam02678 536230007220 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 536230007221 LysR family transcriptional regulator; Provisional; Region: PRK14997 536230007222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230007223 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 536230007224 putative effector binding pocket; other site 536230007225 putative dimerization interface [polypeptide binding]; other site 536230007226 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 536230007227 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 536230007228 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 536230007229 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 536230007230 GIY-YIG motif/motif A; other site 536230007231 active site 536230007232 catalytic site [active] 536230007233 putative DNA binding site [nucleotide binding]; other site 536230007234 metal binding site [ion binding]; metal-binding site 536230007235 UvrB/uvrC motif; Region: UVR; pfam02151 536230007236 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 536230007237 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 536230007238 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 536230007239 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 536230007240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 536230007241 elongation factor P; Validated; Region: PRK00529 536230007242 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 536230007243 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 536230007244 RNA binding site [nucleotide binding]; other site 536230007245 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 536230007246 RNA binding site [nucleotide binding]; other site 536230007247 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230007248 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 536230007249 active site 536230007250 phosphorylation site [posttranslational modification] 536230007251 intermolecular recognition site; other site 536230007252 dimerization interface [polypeptide binding]; other site 536230007253 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230007254 Walker A motif; other site 536230007255 ATP binding site [chemical binding]; other site 536230007256 Walker B motif; other site 536230007257 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536230007258 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 536230007259 beta-hexosaminidase; Provisional; Region: PRK05337 536230007260 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 536230007261 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 536230007262 active site 536230007263 hydrophilic channel; other site 536230007264 dimerization interface [polypeptide binding]; other site 536230007265 catalytic residues [active] 536230007266 active site lid [active] 536230007267 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 536230007268 Recombination protein O N terminal; Region: RecO_N; pfam11967 536230007269 Recombination protein O C terminal; Region: RecO_C; pfam02565 536230007270 GTPase Era; Reviewed; Region: era; PRK00089 536230007271 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 536230007272 G1 box; other site 536230007273 GTP/Mg2+ binding site [chemical binding]; other site 536230007274 Switch I region; other site 536230007275 G2 box; other site 536230007276 Switch II region; other site 536230007277 G3 box; other site 536230007278 G4 box; other site 536230007279 G5 box; other site 536230007280 KH domain; Region: KH_2; pfam07650 536230007281 ribonuclease III; Provisional; Region: PRK14718 536230007282 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 536230007283 dimerization interface [polypeptide binding]; other site 536230007284 active site 536230007285 metal binding site [ion binding]; metal-binding site 536230007286 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 536230007287 signal peptidase I; Provisional; Region: PRK10861 536230007288 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 536230007289 Catalytic site [active] 536230007290 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 536230007291 GTP-binding protein LepA; Provisional; Region: PRK05433 536230007292 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 536230007293 G1 box; other site 536230007294 putative GEF interaction site [polypeptide binding]; other site 536230007295 GTP/Mg2+ binding site [chemical binding]; other site 536230007296 Switch I region; other site 536230007297 G2 box; other site 536230007298 G3 box; other site 536230007299 Switch II region; other site 536230007300 G4 box; other site 536230007301 G5 box; other site 536230007302 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 536230007303 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 536230007304 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 536230007305 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 536230007306 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 536230007307 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536230007308 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230007309 protein binding site [polypeptide binding]; other site 536230007310 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230007311 protein binding site [polypeptide binding]; other site 536230007312 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 536230007313 anti-sigma E factor; Provisional; Region: rseB; PRK09455 536230007314 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 536230007315 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 536230007316 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230007317 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230007318 DNA binding residues [nucleotide binding] 536230007319 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 536230007320 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 536230007321 dimer interface [polypeptide binding]; other site 536230007322 active site 536230007323 acyl carrier protein; Provisional; Region: acpP; PRK00982 536230007324 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 536230007325 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 536230007326 NAD(P) binding site [chemical binding]; other site 536230007327 homotetramer interface [polypeptide binding]; other site 536230007328 homodimer interface [polypeptide binding]; other site 536230007329 active site 536230007330 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 536230007331 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 536230007332 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536230007333 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 536230007334 dimer interface [polypeptide binding]; other site 536230007335 active site 536230007336 CoA binding pocket [chemical binding]; other site 536230007337 putative phosphate acyltransferase; Provisional; Region: PRK05331 536230007338 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 536230007339 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 536230007340 Maf-like protein; Region: Maf; pfam02545 536230007341 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 536230007342 active site 536230007343 dimer interface [polypeptide binding]; other site 536230007344 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 536230007345 putative SAM binding site [chemical binding]; other site 536230007346 homodimer interface [polypeptide binding]; other site 536230007347 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 536230007348 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 536230007349 tandem repeat interface [polypeptide binding]; other site 536230007350 oligomer interface [polypeptide binding]; other site 536230007351 active site residues [active] 536230007352 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 536230007353 iron-sulfur cluster [ion binding]; other site 536230007354 [2Fe-2S] cluster binding site [ion binding]; other site 536230007355 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 536230007356 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 536230007357 motif II; other site 536230007358 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 536230007359 S4 domain; Region: S4; pfam01479 536230007360 RNA binding surface [nucleotide binding]; other site 536230007361 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536230007362 active site 536230007363 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 536230007364 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 536230007365 homodimer interface [polypeptide binding]; other site 536230007366 oligonucleotide binding site [chemical binding]; other site 536230007367 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 536230007368 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 536230007369 FeS/SAM binding site; other site 536230007370 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 536230007371 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 536230007372 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 536230007373 GTP binding site; other site 536230007374 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 536230007375 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 536230007376 dimer interface [polypeptide binding]; other site 536230007377 putative functional site; other site 536230007378 putative MPT binding site; other site 536230007379 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536230007380 RmuC family; Region: RmuC; pfam02646 536230007381 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 536230007382 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 536230007383 dimerization interface [polypeptide binding]; other site 536230007384 ligand binding site [chemical binding]; other site 536230007385 NADP binding site [chemical binding]; other site 536230007386 catalytic site [active] 536230007387 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 536230007388 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 536230007389 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 536230007390 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 536230007391 active site 536230007392 Ferredoxin [Energy production and conversion]; Region: COG1146 536230007393 4Fe-4S binding domain; Region: Fer4; cl02805 536230007394 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 536230007395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 536230007396 CreA protein; Region: CreA; pfam05981 536230007397 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 536230007398 S4 domain; Region: S4_2; pfam13275 536230007399 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 536230007400 multidrug efflux protein; Reviewed; Region: PRK01766 536230007401 cation binding site [ion binding]; other site 536230007402 fumarate hydratase; Reviewed; Region: fumC; PRK00485 536230007403 Class II fumarases; Region: Fumarase_classII; cd01362 536230007404 active site 536230007405 tetramer interface [polypeptide binding]; other site 536230007406 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 536230007407 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 536230007408 dimerization interface [polypeptide binding]; other site 536230007409 putative DNA binding site [nucleotide binding]; other site 536230007410 putative Zn2+ binding site [ion binding]; other site 536230007411 FecR protein; Region: FecR; pfam04773 536230007412 thymidylate synthase; Provisional; Region: thyA; PRK13821 536230007413 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 536230007414 dimerization interface [polypeptide binding]; other site 536230007415 active site 536230007416 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230007417 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230007418 Walker A motif; other site 536230007419 ATP binding site [chemical binding]; other site 536230007420 Walker B motif; other site 536230007421 arginine finger; other site 536230007422 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536230007423 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 536230007424 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230007425 Walker A motif; other site 536230007426 ATP binding site [chemical binding]; other site 536230007427 Walker B motif; other site 536230007428 arginine finger; other site 536230007429 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 536230007430 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 536230007431 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 536230007432 folate binding site [chemical binding]; other site 536230007433 NADP+ binding site [chemical binding]; other site 536230007434 Transposase domain (DUF772); Region: DUF772; pfam05598 536230007435 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536230007436 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536230007437 peptidase PmbA; Provisional; Region: PRK11040 536230007438 hypothetical protein; Provisional; Region: PRK05255 536230007439 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 536230007440 MPT binding site; other site 536230007441 trimer interface [polypeptide binding]; other site 536230007442 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 536230007443 catalytic site [active] 536230007444 putative active site [active] 536230007445 putative substrate binding site [chemical binding]; other site 536230007446 dimer interface [polypeptide binding]; other site 536230007447 Peptidase family M48; Region: Peptidase_M48; pfam01435 536230007448 GTPase RsgA; Reviewed; Region: PRK00098 536230007449 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 536230007450 RNA binding site [nucleotide binding]; other site 536230007451 homodimer interface [polypeptide binding]; other site 536230007452 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 536230007453 GTPase/Zn-binding domain interface [polypeptide binding]; other site 536230007454 GTP/Mg2+ binding site [chemical binding]; other site 536230007455 G4 box; other site 536230007456 G5 box; other site 536230007457 G1 box; other site 536230007458 Switch I region; other site 536230007459 G2 box; other site 536230007460 G3 box; other site 536230007461 Switch II region; other site 536230007462 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 536230007463 CobD/CbiB family protein; Provisional; Region: PRK07630 536230007464 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 536230007465 putative active site [active] 536230007466 putative CoA binding site [chemical binding]; other site 536230007467 nudix motif; other site 536230007468 metal binding site [ion binding]; metal-binding site 536230007469 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536230007470 Coenzyme A binding pocket [chemical binding]; other site 536230007471 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 536230007472 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 536230007473 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 536230007474 RimM N-terminal domain; Region: RimM; pfam01782 536230007475 PRC-barrel domain; Region: PRC; pfam05239 536230007476 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 536230007477 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 536230007478 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 536230007479 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 536230007480 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 536230007481 AsnC family; Region: AsnC_trans_reg; pfam01037 536230007482 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 536230007483 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536230007484 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536230007485 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 536230007486 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 536230007487 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230007488 active site 536230007489 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 536230007490 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 536230007491 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 536230007492 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536230007493 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 536230007494 Ligand binding site [chemical binding]; other site 536230007495 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536230007496 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 536230007497 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 536230007498 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230007499 dimer interface [polypeptide binding]; other site 536230007500 conserved gate region; other site 536230007501 ABC-ATPase subunit interface; other site 536230007502 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 536230007503 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 536230007504 Walker A/P-loop; other site 536230007505 ATP binding site [chemical binding]; other site 536230007506 Q-loop/lid; other site 536230007507 ABC transporter signature motif; other site 536230007508 Walker B; other site 536230007509 D-loop; other site 536230007510 H-loop/switch region; other site 536230007511 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 536230007512 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 536230007513 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536230007514 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 536230007515 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 536230007516 putative active site [active] 536230007517 Zn binding site [ion binding]; other site 536230007518 Transglycosylase SLT domain; Region: SLT_2; pfam13406 536230007519 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536230007520 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536230007521 catalytic residue [active] 536230007522 cysteine synthase B; Region: cysM; TIGR01138 536230007523 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 536230007524 dimer interface [polypeptide binding]; other site 536230007525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230007526 catalytic residue [active] 536230007527 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 536230007528 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 536230007529 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 536230007530 NADP binding site [chemical binding]; other site 536230007531 homopentamer interface [polypeptide binding]; other site 536230007532 substrate binding site [chemical binding]; other site 536230007533 active site 536230007534 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 536230007535 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230007536 putative ribose interaction site [chemical binding]; other site 536230007537 putative ADP binding site [chemical binding]; other site 536230007538 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 536230007539 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 536230007540 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 536230007541 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 536230007542 tetratricopeptide repeat protein; Provisional; Region: PRK11788 536230007543 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 536230007544 binding surface 536230007545 TPR motif; other site 536230007546 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 536230007547 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 536230007548 IHF dimer interface [polypeptide binding]; other site 536230007549 IHF - DNA interface [nucleotide binding]; other site 536230007550 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 536230007551 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 536230007552 RNA binding site [nucleotide binding]; other site 536230007553 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 536230007554 RNA binding site [nucleotide binding]; other site 536230007555 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 536230007556 RNA binding site [nucleotide binding]; other site 536230007557 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 536230007558 RNA binding site [nucleotide binding]; other site 536230007559 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 536230007560 RNA binding site [nucleotide binding]; other site 536230007561 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 536230007562 RNA binding site [nucleotide binding]; other site 536230007563 cytidylate kinase; Provisional; Region: cmk; PRK00023 536230007564 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 536230007565 CMP-binding site; other site 536230007566 The sites determining sugar specificity; other site 536230007567 bifunctional prephenate dehydrogenase/3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK11861 536230007568 prephenate dehydrogenase; Validated; Region: PRK08507 536230007569 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 536230007570 hinge; other site 536230007571 active site 536230007572 Chorismate mutase type II; Region: CM_2; smart00830 536230007573 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 536230007574 Prephenate dehydratase; Region: PDT; pfam00800 536230007575 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 536230007576 putative L-Phe binding site [chemical binding]; other site 536230007577 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 536230007578 homodimer interface [polypeptide binding]; other site 536230007579 substrate-cofactor binding pocket; other site 536230007580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230007581 catalytic residue [active] 536230007582 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 536230007583 DNA gyrase subunit A; Validated; Region: PRK05560 536230007584 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 536230007585 CAP-like domain; other site 536230007586 active site 536230007587 primary dimer interface [polypeptide binding]; other site 536230007588 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230007589 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230007590 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230007591 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230007592 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230007593 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536230007594 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230007595 ligand binding site [chemical binding]; other site 536230007596 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 536230007597 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 536230007598 S-adenosylmethionine binding site [chemical binding]; other site 536230007599 phosphoglycolate phosphatase; Provisional; Region: PRK13226 536230007600 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 536230007601 motif II; other site 536230007602 integrase; Provisional; Region: PRK09692 536230007603 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 536230007604 active site 536230007605 Int/Topo IB signature motif; other site 536230007606 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 536230007607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 536230007608 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 536230007609 active site 536230007610 metal binding site [ion binding]; metal-binding site 536230007611 interdomain interaction site; other site 536230007612 Domain of unknown function (DUF927); Region: DUF927; pfam06048 536230007613 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 536230007614 Uncharacterized conserved protein [Function unknown]; Region: COG1479 536230007615 Protein of unknown function DUF262; Region: DUF262; pfam03235 536230007616 Uncharacterized conserved protein [Function unknown]; Region: COG3472 536230007617 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 536230007618 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536230007619 catalytic residues [active] 536230007620 catalytic nucleophile [active] 536230007621 Presynaptic Site I dimer interface [polypeptide binding]; other site 536230007622 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536230007623 Synaptic Flat tetramer interface [polypeptide binding]; other site 536230007624 Synaptic Site I dimer interface [polypeptide binding]; other site 536230007625 DNA binding site [nucleotide binding] 536230007626 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 536230007627 DNA-binding interface [nucleotide binding]; DNA binding site 536230007628 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 536230007629 S-adenosylmethionine binding site [chemical binding]; other site 536230007630 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 536230007631 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 536230007632 PBP superfamily domain; Region: PBP_like; pfam12727 536230007633 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 536230007634 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 536230007635 putative dimer interface [polypeptide binding]; other site 536230007636 [2Fe-2S] cluster binding site [ion binding]; other site 536230007637 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 536230007638 putative dimer interface [polypeptide binding]; other site 536230007639 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 536230007640 SLBB domain; Region: SLBB; pfam10531 536230007641 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 536230007642 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 536230007643 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 536230007644 catalytic loop [active] 536230007645 iron binding site [ion binding]; other site 536230007646 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 536230007647 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 536230007648 [4Fe-4S] binding site [ion binding]; other site 536230007649 molybdopterin cofactor binding site; other site 536230007650 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 536230007651 molybdopterin cofactor binding site; other site 536230007652 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 536230007653 hypothetical protein; Provisional; Region: PRK06184 536230007654 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 536230007655 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 536230007656 binding surface 536230007657 TPR motif; other site 536230007658 TPR repeat; Region: TPR_11; pfam13414 536230007659 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 536230007660 binding surface 536230007661 TPR motif; other site 536230007662 TPR repeat; Region: TPR_11; pfam13414 536230007663 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 536230007664 TPR repeat; Region: TPR_11; pfam13414 536230007665 TPR motif; other site 536230007666 binding surface 536230007667 TPR repeat; Region: TPR_11; pfam13414 536230007668 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 536230007669 binding surface 536230007670 TPR motif; other site 536230007671 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 536230007672 citrate-proton symporter; Provisional; Region: PRK15075 536230007673 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 536230007674 putative substrate translocation pore; other site 536230007675 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 536230007676 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 536230007677 catalytic triad [active] 536230007678 amidase; Provisional; Region: PRK07056 536230007679 Amidase; Region: Amidase; cl11426 536230007680 disulfide bond formation protein B; Provisional; Region: PRK02110 536230007681 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 536230007682 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 536230007683 XdhC Rossmann domain; Region: XdhC_C; pfam13478 536230007684 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 536230007685 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 536230007686 active site 536230007687 purine riboside binding site [chemical binding]; other site 536230007688 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536230007689 guanine deaminase; Provisional; Region: PRK09228 536230007690 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 536230007691 active site 536230007692 yybP-ykoY leader 536230007693 Predicted membrane protein [Function unknown]; Region: COG2119 536230007694 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 536230007695 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 536230007696 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 536230007697 aminopeptidase N; Provisional; Region: pepN; PRK14015 536230007698 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 536230007699 active site 536230007700 Zn binding site [ion binding]; other site 536230007701 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 536230007702 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 536230007703 THF binding site; other site 536230007704 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 536230007705 substrate binding site [chemical binding]; other site 536230007706 THF binding site; other site 536230007707 zinc-binding site [ion binding]; other site 536230007708 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 536230007709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230007710 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 536230007711 putative dimerization interface [polypeptide binding]; other site 536230007712 fructose-1,6-bisphosphatase family protein; Region: PLN02628 536230007713 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 536230007714 AMP binding site [chemical binding]; other site 536230007715 metal binding site [ion binding]; metal-binding site 536230007716 active site 536230007717 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 536230007718 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536230007719 catalytic residues [active] 536230007720 BNR repeat-like domain; Region: BNR_2; pfam13088 536230007721 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 536230007722 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 536230007723 N-terminal plug; other site 536230007724 ligand-binding site [chemical binding]; other site 536230007725 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 536230007726 chorismate mutase; Provisional; Region: PRK09269 536230007727 Chorismate mutase type II; Region: CM_2; cl00693 536230007728 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 536230007729 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 536230007730 active site 536230007731 catalytic site [active] 536230007732 substrate binding site [chemical binding]; other site 536230007733 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 536230007734 GIY-YIG motif/motif A; other site 536230007735 active site 536230007736 catalytic site [active] 536230007737 putative DNA binding site [nucleotide binding]; other site 536230007738 metal binding site [ion binding]; metal-binding site 536230007739 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536230007740 DNA-binding site [nucleotide binding]; DNA binding site 536230007741 RNA-binding motif; other site 536230007742 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230007743 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230007744 trimer interface [polypeptide binding]; other site 536230007745 eyelet of channel; other site 536230007746 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 536230007747 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 536230007748 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 536230007749 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 536230007750 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536230007751 Zn2+ binding site [ion binding]; other site 536230007752 Mg2+ binding site [ion binding]; other site 536230007753 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536230007754 synthetase active site [active] 536230007755 NTP binding site [chemical binding]; other site 536230007756 metal binding site [ion binding]; metal-binding site 536230007757 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 536230007758 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 536230007759 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 536230007760 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 536230007761 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 536230007762 catalytic site [active] 536230007763 G-X2-G-X-G-K; other site 536230007764 hypothetical protein; Provisional; Region: PRK11820 536230007765 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 536230007766 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 536230007767 ribonuclease PH; Reviewed; Region: rph; PRK00173 536230007768 Ribonuclease PH; Region: RNase_PH_bact; cd11362 536230007769 hexamer interface [polypeptide binding]; other site 536230007770 active site 536230007771 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 536230007772 active site 536230007773 dimerization interface [polypeptide binding]; other site 536230007774 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 536230007775 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 536230007776 FeS/SAM binding site; other site 536230007777 HemN C-terminal domain; Region: HemN_C; pfam06969 536230007778 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 536230007779 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 536230007780 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 536230007781 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 536230007782 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230007783 putative substrate translocation pore; other site 536230007784 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230007785 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 536230007786 putative active site [active] 536230007787 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 536230007788 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 536230007789 putative ion selectivity filter; other site 536230007790 putative pore gating glutamate residue; other site 536230007791 putative H+/Cl- coupling transport residue; other site 536230007792 cell division topological specificity factor MinE; Provisional; Region: PRK13989 536230007793 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 536230007794 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 536230007795 Switch I; other site 536230007796 Switch II; other site 536230007797 septum formation inhibitor; Reviewed; Region: PRK01973 536230007798 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 536230007799 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 536230007800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230007801 Coenzyme A binding pocket [chemical binding]; other site 536230007802 seryl-tRNA synthetase; Provisional; Region: PRK05431 536230007803 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 536230007804 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 536230007805 dimer interface [polypeptide binding]; other site 536230007806 active site 536230007807 motif 1; other site 536230007808 motif 2; other site 536230007809 motif 3; other site 536230007810 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 536230007811 recombination factor protein RarA; Reviewed; Region: PRK13342 536230007812 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230007813 Walker A motif; other site 536230007814 ATP binding site [chemical binding]; other site 536230007815 Walker B motif; other site 536230007816 arginine finger; other site 536230007817 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 536230007818 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 536230007819 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 536230007820 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 536230007821 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 536230007822 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 536230007823 thioredoxin reductase; Provisional; Region: PRK10262 536230007824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536230007825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 536230007826 Smr domain; Region: Smr; pfam01713 536230007827 Predicted membrane protein [Function unknown]; Region: COG2860 536230007828 UPF0126 domain; Region: UPF0126; pfam03458 536230007829 UPF0126 domain; Region: UPF0126; pfam03458 536230007830 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 536230007831 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 536230007832 Walker A/P-loop; other site 536230007833 ATP binding site [chemical binding]; other site 536230007834 Q-loop/lid; other site 536230007835 ABC transporter signature motif; other site 536230007836 Walker B; other site 536230007837 D-loop; other site 536230007838 H-loop/switch region; other site 536230007839 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 536230007840 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230007841 dimer interface [polypeptide binding]; other site 536230007842 conserved gate region; other site 536230007843 putative PBP binding loops; other site 536230007844 ABC-ATPase subunit interface; other site 536230007845 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230007846 dimer interface [polypeptide binding]; other site 536230007847 conserved gate region; other site 536230007848 putative PBP binding loops; other site 536230007849 ABC-ATPase subunit interface; other site 536230007850 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536230007851 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 536230007852 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 536230007853 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 536230007854 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 536230007855 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 536230007856 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 536230007857 putative active site [active] 536230007858 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 536230007859 glucokinase; Provisional; Region: glk; PRK00292 536230007860 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536230007861 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 536230007862 putative active site [active] 536230007863 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230007864 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230007865 substrate binding pocket [chemical binding]; other site 536230007866 membrane-bound complex binding site; other site 536230007867 hinge residues; other site 536230007868 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230007869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230007870 dimer interface [polypeptide binding]; other site 536230007871 conserved gate region; other site 536230007872 putative PBP binding loops; other site 536230007873 ABC-ATPase subunit interface; other site 536230007874 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536230007875 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536230007876 Walker A/P-loop; other site 536230007877 ATP binding site [chemical binding]; other site 536230007878 Q-loop/lid; other site 536230007879 ABC transporter signature motif; other site 536230007880 Walker B; other site 536230007881 D-loop; other site 536230007882 H-loop/switch region; other site 536230007883 D-cysteine desulfhydrase; Validated; Region: PRK03910 536230007884 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 536230007885 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230007886 catalytic residue [active] 536230007887 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 536230007888 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 536230007889 putative substrate translocation pore; other site 536230007890 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 536230007891 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 536230007892 inhibitor-cofactor binding pocket; inhibition site 536230007893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230007894 catalytic residue [active] 536230007895 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 536230007896 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 536230007897 catalytic motif [active] 536230007898 Zn binding site [ion binding]; other site 536230007899 RibD C-terminal domain; Region: RibD_C; cl17279 536230007900 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 536230007901 Lumazine binding domain; Region: Lum_binding; pfam00677 536230007902 Lumazine binding domain; Region: Lum_binding; pfam00677 536230007903 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 536230007904 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 536230007905 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 536230007906 dimerization interface [polypeptide binding]; other site 536230007907 active site 536230007908 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 536230007909 homopentamer interface [polypeptide binding]; other site 536230007910 active site 536230007911 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 536230007912 putative RNA binding site [nucleotide binding]; other site 536230007913 aminotransferase; Validated; Region: PRK07337 536230007914 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 536230007915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230007916 homodimer interface [polypeptide binding]; other site 536230007917 catalytic residue [active] 536230007918 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 536230007919 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536230007920 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536230007921 catalytic residue [active] 536230007922 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 536230007923 LysE type translocator; Region: LysE; cl00565 536230007924 serine racemase; Region: PLN02970 536230007925 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 536230007926 tetramer interface [polypeptide binding]; other site 536230007927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230007928 catalytic residue [active] 536230007929 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 536230007930 Rossmann-like domain; Region: Rossmann-like; pfam10727 536230007931 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 536230007932 YGGT family; Region: YGGT; pfam02325 536230007933 YGGT family; Region: YGGT; pfam02325 536230007934 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 536230007935 chromosome condensation membrane protein; Provisional; Region: PRK14196 536230007936 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 536230007937 active site 536230007938 catalytic triad [active] 536230007939 calcium binding site [ion binding]; other site 536230007940 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536230007941 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 536230007942 S-adenosylmethionine binding site [chemical binding]; other site 536230007943 potential frameshift: common BLAST hit: gi|126439857|ref|YP_001060048.1| NAD-dependent deacetylase 536230007944 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 536230007945 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 536230007946 non-specific DNA binding site [nucleotide binding]; other site 536230007947 salt bridge; other site 536230007948 sequence-specific DNA binding site [nucleotide binding]; other site 536230007949 Domain of unknown function (DUF955); Region: DUF955; cl01076 536230007950 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 536230007951 S-adenosylmethionine binding site [chemical binding]; other site 536230007952 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 536230007953 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 536230007954 Flagellin N-methylase; Region: FliB; pfam03692 536230007955 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 536230007956 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 536230007957 FeS/SAM binding site; other site 536230007958 HemN C-terminal domain; Region: HemN_C; pfam06969 536230007959 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 536230007960 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 536230007961 S-adenosylmethionine binding site [chemical binding]; other site 536230007962 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 536230007963 active site residue [active] 536230007964 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 536230007965 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 536230007966 inhibitor-cofactor binding pocket; inhibition site 536230007967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230007968 catalytic residue [active] 536230007969 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 536230007970 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 536230007971 putative ligand binding site [chemical binding]; other site 536230007972 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 536230007973 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230007974 TM-ABC transporter signature motif; other site 536230007975 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 536230007976 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 536230007977 TM-ABC transporter signature motif; other site 536230007978 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 536230007979 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 536230007980 Walker A/P-loop; other site 536230007981 ATP binding site [chemical binding]; other site 536230007982 Q-loop/lid; other site 536230007983 ABC transporter signature motif; other site 536230007984 Walker B; other site 536230007985 D-loop; other site 536230007986 H-loop/switch region; other site 536230007987 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 536230007988 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536230007989 Walker A/P-loop; other site 536230007990 ATP binding site [chemical binding]; other site 536230007991 Q-loop/lid; other site 536230007992 ABC transporter signature motif; other site 536230007993 Walker B; other site 536230007994 D-loop; other site 536230007995 H-loop/switch region; other site 536230007996 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 536230007997 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 536230007998 alpha-gamma subunit interface [polypeptide binding]; other site 536230007999 beta-gamma subunit interface [polypeptide binding]; other site 536230008000 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 536230008001 gamma-beta subunit interface [polypeptide binding]; other site 536230008002 alpha-beta subunit interface [polypeptide binding]; other site 536230008003 urease subunit alpha; Reviewed; Region: ureC; PRK13207 536230008004 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 536230008005 subunit interactions [polypeptide binding]; other site 536230008006 active site 536230008007 flap region; other site 536230008008 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 536230008009 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 536230008010 dimer interface [polypeptide binding]; other site 536230008011 catalytic residues [active] 536230008012 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 536230008013 UreF; Region: UreF; pfam01730 536230008014 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536230008015 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 536230008016 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 536230008017 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 536230008018 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 536230008019 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536230008020 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 536230008021 putative active site [active] 536230008022 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 536230008023 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 536230008024 active site 536230008025 substrate binding site [chemical binding]; other site 536230008026 metal binding site [ion binding]; metal-binding site 536230008027 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536230008028 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536230008029 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 536230008030 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 536230008031 active site 536230008032 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 536230008033 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230008034 putative ADP-binding pocket [chemical binding]; other site 536230008035 UDP-glucose 4-epimerase; Region: PLN02240 536230008036 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 536230008037 NAD binding site [chemical binding]; other site 536230008038 homodimer interface [polypeptide binding]; other site 536230008039 active site 536230008040 substrate binding site [chemical binding]; other site 536230008041 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 536230008042 Mg++ binding site [ion binding]; other site 536230008043 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 536230008044 putative catalytic motif [active] 536230008045 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 536230008046 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 536230008047 NAD(P) binding site [chemical binding]; other site 536230008048 homodimer interface [polypeptide binding]; other site 536230008049 substrate binding site [chemical binding]; other site 536230008050 active site 536230008051 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 536230008052 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 precursor; Region: GT_WbpL_WbcO_like; cd06854 536230008053 Mg++ binding site [ion binding]; other site 536230008054 putative catalytic motif [active] 536230008055 putative substrate binding site [chemical binding]; other site 536230008056 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536230008057 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 536230008058 putative NAD(P) binding site [chemical binding]; other site 536230008059 active site 536230008060 putative substrate binding site [chemical binding]; other site 536230008061 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 536230008062 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 536230008063 active site 536230008064 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 536230008065 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 536230008066 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 536230008067 Probable Catalytic site; other site 536230008068 metal-binding site 536230008069 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 536230008070 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 536230008071 active site 536230008072 Methyltransferase domain; Region: Methyltransf_23; pfam13489 536230008073 Methyltransferase domain; Region: Methyltransf_12; pfam08242 536230008074 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 536230008075 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 536230008076 active site 536230008077 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 536230008078 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 536230008079 Probable Catalytic site; other site 536230008080 metal-binding site 536230008081 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536230008082 extended (e) SDRs; Region: SDR_e; cd08946 536230008083 NAD(P) binding site [chemical binding]; other site 536230008084 active site 536230008085 substrate binding site [chemical binding]; other site 536230008086 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536230008087 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 536230008088 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 536230008089 Walker A/P-loop; other site 536230008090 ATP binding site [chemical binding]; other site 536230008091 Q-loop/lid; other site 536230008092 ABC transporter signature motif; other site 536230008093 Walker B; other site 536230008094 D-loop; other site 536230008095 H-loop/switch region; other site 536230008096 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 536230008097 putative carbohydrate binding site [chemical binding]; other site 536230008098 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 536230008099 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536230008100 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 536230008101 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 536230008102 NADP binding site [chemical binding]; other site 536230008103 active site 536230008104 putative substrate binding site [chemical binding]; other site 536230008105 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 536230008106 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 536230008107 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 536230008108 substrate binding site; other site 536230008109 tetramer interface; other site 536230008110 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 536230008111 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 536230008112 NAD binding site [chemical binding]; other site 536230008113 substrate binding site [chemical binding]; other site 536230008114 homodimer interface [polypeptide binding]; other site 536230008115 active site 536230008116 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 536230008117 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 536230008118 active site 536230008119 metal binding site [ion binding]; metal-binding site 536230008120 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 536230008121 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536230008122 putative acyl-acceptor binding pocket; other site 536230008123 dihydroorotase; Provisional; Region: PRK07627 536230008124 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 536230008125 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 536230008126 active site 536230008127 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 536230008128 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536230008129 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536230008130 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230008131 active site 536230008132 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 536230008133 hypothetical protein; Validated; Region: PRK00228 536230008134 Rubredoxin [Energy production and conversion]; Region: COG1773 536230008135 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 536230008136 iron binding site [ion binding]; other site 536230008137 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 536230008138 dimer interface [polypeptide binding]; other site 536230008139 substrate binding site [chemical binding]; other site 536230008140 ATP binding site [chemical binding]; other site 536230008141 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 536230008142 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 536230008143 ring oligomerisation interface [polypeptide binding]; other site 536230008144 ATP/Mg binding site [chemical binding]; other site 536230008145 stacking interactions; other site 536230008146 hinge regions; other site 536230008147 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 536230008148 oligomerisation interface [polypeptide binding]; other site 536230008149 mobile loop; other site 536230008150 roof hairpin; other site 536230008151 Predicted transcriptional regulators [Transcription]; Region: COG1733 536230008152 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 536230008153 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 536230008154 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 536230008155 putative NAD(P) binding site [chemical binding]; other site 536230008156 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 536230008157 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230008158 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230008159 Predicted transcriptional regulators [Transcription]; Region: COG1733 536230008160 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 536230008161 dimerization interface [polypeptide binding]; other site 536230008162 putative DNA binding site [nucleotide binding]; other site 536230008163 putative Zn2+ binding site [ion binding]; other site 536230008164 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536230008165 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536230008166 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 536230008167 non-specific DNA binding site [nucleotide binding]; other site 536230008168 salt bridge; other site 536230008169 sequence-specific DNA binding site [nucleotide binding]; other site 536230008170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536230008171 Coenzyme A binding pocket [chemical binding]; other site 536230008172 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 536230008173 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 536230008174 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 536230008175 putative active site [active] 536230008176 catalytic site [active] 536230008177 putative metal binding site [ion binding]; other site 536230008178 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230008179 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 536230008180 putative substrate translocation pore; other site 536230008181 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 536230008182 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 536230008183 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 536230008184 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 536230008185 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 536230008186 BON domain; Region: BON; cl02771 536230008187 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 536230008188 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 536230008189 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 536230008190 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 536230008191 putative catalytic residue [active] 536230008192 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230008193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230008194 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 536230008195 dimerization interface [polypeptide binding]; other site 536230008196 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536230008197 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 536230008198 dimer interface [polypeptide binding]; other site 536230008199 putative PBP binding regions; other site 536230008200 ABC-ATPase subunit interface; other site 536230008201 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 536230008202 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 536230008203 putative ligand binding residues [chemical binding]; other site 536230008204 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 536230008205 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536230008206 Walker A/P-loop; other site 536230008207 ATP binding site [chemical binding]; other site 536230008208 Q-loop/lid; other site 536230008209 ABC transporter signature motif; other site 536230008210 Walker B; other site 536230008211 D-loop; other site 536230008212 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 536230008213 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 536230008214 N-terminal plug; other site 536230008215 ligand-binding site [chemical binding]; other site 536230008216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 536230008217 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 536230008218 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536230008219 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 536230008220 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 536230008221 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536230008222 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 536230008223 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 536230008224 catalytic loop [active] 536230008225 iron binding site [ion binding]; other site 536230008226 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536230008227 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 536230008228 major facilitator superfamily transporter; Provisional; Region: PRK05122 536230008229 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 536230008230 putative substrate translocation pore; other site 536230008231 EamA-like transporter family; Region: EamA; pfam00892 536230008232 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536230008233 EamA-like transporter family; Region: EamA; pfam00892 536230008234 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230008235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230008236 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 536230008237 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230008238 catalytic residue [active] 536230008239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230008240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230008241 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 536230008242 putative effector binding pocket; other site 536230008243 dimerization interface [polypeptide binding]; other site 536230008244 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 536230008245 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 536230008246 putative ligand binding site [chemical binding]; other site 536230008247 putative NAD binding site [chemical binding]; other site 536230008248 catalytic site [active] 536230008249 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 536230008250 putative FMN binding site [chemical binding]; other site 536230008251 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 536230008252 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 536230008253 putative substrate translocation pore; other site 536230008254 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 536230008255 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536230008256 putative substrate translocation pore; other site 536230008257 fumarylacetoacetase; Region: PLN02856 536230008258 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 536230008259 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 536230008260 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 536230008261 benzoate transport; Region: 2A0115; TIGR00895 536230008262 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 536230008263 putative substrate translocation pore; other site 536230008264 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 536230008265 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 536230008266 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 536230008267 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 536230008268 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536230008269 EAL domain; Region: EAL; pfam00563 536230008270 Uncharacterized conserved protein [Function unknown]; Region: COG3791 536230008271 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230008272 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536230008273 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230008274 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 536230008275 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230008276 FAD binding site [chemical binding]; other site 536230008277 substrate binding pocket [chemical binding]; other site 536230008278 catalytic base [active] 536230008279 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 536230008280 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 536230008281 dimer interface [polypeptide binding]; other site 536230008282 decamer (pentamer of dimers) interface [polypeptide binding]; other site 536230008283 catalytic triad [active] 536230008284 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 536230008285 Predicted membrane protein [Function unknown]; Region: COG5393 536230008286 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 536230008287 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 536230008288 Type II transport protein GspH; Region: GspH; pfam12019 536230008289 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 536230008290 ATP cone domain; Region: ATP-cone; pfam03477 536230008291 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 536230008292 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 536230008293 dimer interface [polypeptide binding]; other site 536230008294 active site 536230008295 glycine-pyridoxal phosphate binding site [chemical binding]; other site 536230008296 folate binding site [chemical binding]; other site 536230008297 malonic semialdehyde reductase; Provisional; Region: PRK10538 536230008298 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 536230008299 putative NAD(P) binding site [chemical binding]; other site 536230008300 homodimer interface [polypeptide binding]; other site 536230008301 homotetramer interface [polypeptide binding]; other site 536230008302 active site 536230008303 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 536230008304 active site 536230008305 TolQ protein; Region: tolQ; TIGR02796 536230008306 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 536230008307 TolR protein; Region: tolR; TIGR02801 536230008308 TolA protein; Region: tolA_full; TIGR02794 536230008309 TonB C terminal; Region: TonB_2; pfam13103 536230008310 translocation protein TolB; Provisional; Region: tolB; PRK02889 536230008311 TolB amino-terminal domain; Region: TolB_N; pfam04052 536230008312 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536230008313 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536230008314 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536230008315 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 536230008316 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230008317 ligand binding site [chemical binding]; other site 536230008318 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 536230008319 Tetratricopeptide repeat; Region: TPR_6; pfam13174 536230008320 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 536230008321 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 536230008322 active site 536230008323 tetramer interface; other site 536230008324 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 536230008325 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 536230008326 putative active site [active] 536230008327 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 536230008328 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 536230008329 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 536230008330 active site 536230008331 motif I; other site 536230008332 motif II; other site 536230008333 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 536230008334 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536230008335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230008336 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 536230008337 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230008338 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 536230008339 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 536230008340 trimer interface [polypeptide binding]; other site 536230008341 active site 536230008342 substrate binding site [chemical binding]; other site 536230008343 CoA binding site [chemical binding]; other site 536230008344 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 536230008345 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 536230008346 tyrosine kinase; Provisional; Region: PRK11519 536230008347 Chain length determinant protein; Region: Wzz; pfam02706 536230008348 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 536230008349 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536230008350 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 536230008351 Low molecular weight phosphatase family; Region: LMWPc; cd00115 536230008352 active site 536230008353 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536230008354 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 536230008355 CoA-binding domain; Region: CoA_binding_3; pfam13727 536230008356 Bacterial sugar transferase; Region: Bac_transf; pfam02397 536230008357 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230008358 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 536230008359 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230008360 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230008361 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 536230008362 active site 536230008363 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536230008364 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 536230008365 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 536230008366 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536230008367 catalytic residue [active] 536230008368 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: PRK13187 536230008369 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 536230008370 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 536230008371 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 536230008372 active site 536230008373 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 536230008374 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 536230008375 Methyltransferase domain; Region: Methyltransf_23; pfam13489 536230008376 Methyltransferase domain; Region: Methyltransf_12; pfam08242 536230008377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008378 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 536230008379 Enoylreductase; Region: PKS_ER; smart00829 536230008380 NAD(P) binding site [chemical binding]; other site 536230008381 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 536230008382 KR domain; Region: KR; pfam08659 536230008383 putative NADP binding site [chemical binding]; other site 536230008384 active site 536230008385 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 536230008386 Sulfatase; Region: Sulfatase; pfam00884 536230008387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008388 NAD(P) binding site [chemical binding]; other site 536230008389 active site 536230008390 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 536230008391 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 536230008392 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 536230008393 active site 536230008394 motif I; other site 536230008395 motif II; other site 536230008396 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 536230008397 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 536230008398 Substrate binding site; other site 536230008399 Mg++ binding site; other site 536230008400 metal-binding site 536230008401 Mg++ binding site; other site 536230008402 metal-binding site 536230008403 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536230008404 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 536230008405 dimer interface [polypeptide binding]; other site 536230008406 active site 536230008407 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 536230008408 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536230008409 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 536230008410 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 536230008411 NADP-binding site; other site 536230008412 homotetramer interface [polypeptide binding]; other site 536230008413 substrate binding site [chemical binding]; other site 536230008414 homodimer interface [polypeptide binding]; other site 536230008415 active site 536230008416 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 536230008417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536230008418 NAD(P) binding site [chemical binding]; other site 536230008419 active site 536230008420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230008421 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 536230008422 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 536230008423 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 536230008424 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 536230008425 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230008426 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 536230008427 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 536230008428 Walker A/P-loop; other site 536230008429 ATP binding site [chemical binding]; other site 536230008430 Q-loop/lid; other site 536230008431 ABC transporter signature motif; other site 536230008432 Walker B; other site 536230008433 D-loop; other site 536230008434 H-loop/switch region; other site 536230008435 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 536230008436 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536230008437 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 536230008438 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 536230008439 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536230008440 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 536230008441 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230008442 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 536230008443 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 536230008444 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 536230008445 Substrate binding site; other site 536230008446 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 536230008447 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 536230008448 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 536230008449 putative active site [active] 536230008450 putative dimer interface [polypeptide binding]; other site 536230008451 mechanosensitive channel MscS; Provisional; Region: PRK10334 536230008452 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536230008453 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 536230008454 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 536230008455 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 536230008456 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 536230008457 ATP binding site [chemical binding]; other site 536230008458 Mg2+ binding site [ion binding]; other site 536230008459 G-X-G motif; other site 536230008460 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 536230008461 ATP binding site [chemical binding]; other site 536230008462 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 536230008463 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 536230008464 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 536230008465 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 536230008466 SnoaL-like domain; Region: SnoaL_3; pfam13474 536230008467 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 536230008468 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 536230008469 dimerization interface [polypeptide binding]; other site 536230008470 putative ATP binding site [chemical binding]; other site 536230008471 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 536230008472 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 536230008473 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 536230008474 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 536230008475 poly(A) polymerase; Region: pcnB; TIGR01942 536230008476 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 536230008477 active site 536230008478 NTP binding site [chemical binding]; other site 536230008479 metal binding triad [ion binding]; metal-binding site 536230008480 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 536230008481 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 536230008482 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 536230008483 catalytic center binding site [active] 536230008484 ATP binding site [chemical binding]; other site 536230008485 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 536230008486 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 536230008487 Substrate-binding site [chemical binding]; other site 536230008488 Substrate specificity [chemical binding]; other site 536230008489 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 536230008490 oligomerization interface [polypeptide binding]; other site 536230008491 active site 536230008492 metal binding site [ion binding]; metal-binding site 536230008493 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 536230008494 chorismate binding enzyme; Region: Chorismate_bind; cl10555 536230008495 hypothetical protein; Provisional; Region: PRK07546 536230008496 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 536230008497 homodimer interface [polypeptide binding]; other site 536230008498 substrate-cofactor binding pocket; other site 536230008499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230008500 catalytic residue [active] 536230008501 chaperone protein DnaJ; Provisional; Region: PRK10767 536230008502 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 536230008503 HSP70 interaction site [polypeptide binding]; other site 536230008504 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 536230008505 Zn binding sites [ion binding]; other site 536230008506 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 536230008507 dimer interface [polypeptide binding]; other site 536230008508 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 536230008509 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 536230008510 nucleotide binding site [chemical binding]; other site 536230008511 GrpE; Region: GrpE; pfam01025 536230008512 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 536230008513 dimer interface [polypeptide binding]; other site 536230008514 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 536230008515 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 536230008516 RNA binding surface [nucleotide binding]; other site 536230008517 ferrochelatase; Reviewed; Region: hemH; PRK00035 536230008518 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 536230008519 C-terminal domain interface [polypeptide binding]; other site 536230008520 active site 536230008521 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 536230008522 active site 536230008523 N-terminal domain interface [polypeptide binding]; other site 536230008524 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 536230008525 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 536230008526 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 536230008527 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 536230008528 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 536230008529 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 536230008530 Walker A/P-loop; other site 536230008531 ATP binding site [chemical binding]; other site 536230008532 Q-loop/lid; other site 536230008533 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 536230008534 ABC transporter signature motif; other site 536230008535 Walker B; other site 536230008536 D-loop; other site 536230008537 H-loop/switch region; other site 536230008538 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 536230008539 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536230008540 metal binding triad; other site 536230008541 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536230008542 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536230008543 metal binding triad; other site 536230008544 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536230008545 TIGR02099 family protein; Region: TIGR02099 536230008546 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 536230008547 nitrilase; Region: PLN02798 536230008548 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 536230008549 putative active site [active] 536230008550 catalytic triad [active] 536230008551 dimer interface [polypeptide binding]; other site 536230008552 protease TldD; Provisional; Region: tldD; PRK10735 536230008553 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 536230008554 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536230008555 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 536230008556 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 536230008557 heme-binding site [chemical binding]; other site 536230008558 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 536230008559 FAD binding pocket [chemical binding]; other site 536230008560 FAD binding motif [chemical binding]; other site 536230008561 phosphate binding motif [ion binding]; other site 536230008562 beta-alpha-beta structure motif; other site 536230008563 NAD binding pocket [chemical binding]; other site 536230008564 Heme binding pocket [chemical binding]; other site 536230008565 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 536230008566 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230008567 FAD binding domain; Region: FAD_binding_4; pfam01565 536230008568 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 536230008569 FAD binding domain; Region: FAD_binding_4; pfam01565 536230008570 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 536230008571 FAD binding domain; Region: FAD_binding_4; pfam01565 536230008572 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 536230008573 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 536230008574 Cysteine-rich domain; Region: CCG; pfam02754 536230008575 Cysteine-rich domain; Region: CCG; pfam02754 536230008576 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 536230008577 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536230008578 catalytic residue [active] 536230008579 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 536230008580 pyrroline-5-carboxylate reductase; Region: PLN02688 536230008581 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 536230008582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230008583 dimer interface [polypeptide binding]; other site 536230008584 conserved gate region; other site 536230008585 ABC-ATPase subunit interface; other site 536230008586 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 536230008587 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 536230008588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230008589 Walker A/P-loop; other site 536230008590 ATP binding site [chemical binding]; other site 536230008591 Q-loop/lid; other site 536230008592 ABC transporter signature motif; other site 536230008593 Walker B; other site 536230008594 D-loop; other site 536230008595 H-loop/switch region; other site 536230008596 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 536230008597 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 536230008598 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 536230008599 active site 536230008600 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 536230008601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230008602 Walker A/P-loop; other site 536230008603 ATP binding site [chemical binding]; other site 536230008604 Q-loop/lid; other site 536230008605 ABC transporter signature motif; other site 536230008606 Walker B; other site 536230008607 D-loop; other site 536230008608 H-loop/switch region; other site 536230008609 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 536230008610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536230008611 Walker A/P-loop; other site 536230008612 ATP binding site [chemical binding]; other site 536230008613 Q-loop/lid; other site 536230008614 ABC transporter signature motif; other site 536230008615 Walker B; other site 536230008616 D-loop; other site 536230008617 H-loop/switch region; other site 536230008618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536230008619 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 536230008620 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 536230008621 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 536230008622 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 536230008623 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 536230008624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230008625 DNA-binding site [nucleotide binding]; DNA binding site 536230008626 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 536230008627 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 536230008628 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 536230008629 active site 536230008630 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 536230008631 UbiA prenyltransferase family; Region: UbiA; pfam01040 536230008632 Predicted transcriptional regulators [Transcription]; Region: COG1733 536230008633 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 536230008634 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 536230008635 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 536230008636 dimerization interface [polypeptide binding]; other site 536230008637 DPS ferroxidase diiron center [ion binding]; other site 536230008638 ion pore; other site 536230008639 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 536230008640 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 536230008641 dimer interface [polypeptide binding]; other site 536230008642 active site 536230008643 heme binding site [chemical binding]; other site 536230008644 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 536230008645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230008646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230008647 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 536230008648 dimerization interface [polypeptide binding]; other site 536230008649 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 536230008650 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 536230008651 generic binding surface II; other site 536230008652 ssDNA binding site; other site 536230008653 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 536230008654 ATP binding site [chemical binding]; other site 536230008655 putative Mg++ binding site [ion binding]; other site 536230008656 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 536230008657 nucleotide binding region [chemical binding]; other site 536230008658 ATP-binding site [chemical binding]; other site 536230008659 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 536230008660 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 536230008661 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 536230008662 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 536230008663 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 536230008664 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 536230008665 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 536230008666 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 536230008667 Protein export membrane protein; Region: SecD_SecF; cl14618 536230008668 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 536230008669 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 536230008670 Protein export membrane protein; Region: SecD_SecF; pfam02355 536230008671 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 536230008672 metabolite-proton symporter; Region: 2A0106; TIGR00883 536230008673 putative substrate translocation pore; other site 536230008674 Uncharacterized conserved protein [Function unknown]; Region: COG2353 536230008675 YceI-like domain; Region: YceI; smart00867 536230008676 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 536230008677 Paraquat-inducible protein A; Region: PqiA; pfam04403 536230008678 Paraquat-inducible protein A; Region: PqiA; pfam04403 536230008679 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 536230008680 mce related protein; Region: MCE; pfam02470 536230008681 mce related protein; Region: MCE; pfam02470 536230008682 Protein of unknown function (DUF330); Region: DUF330; pfam03886 536230008683 Site-specific recombinase; Region: SpecificRecomb; pfam10136 536230008684 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 536230008685 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 536230008686 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536230008687 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 536230008688 Predicted transcriptional regulator [Transcription]; Region: COG2378 536230008689 HTH domain; Region: HTH_11; pfam08279 536230008690 WYL domain; Region: WYL; pfam13280 536230008691 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 536230008692 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 536230008693 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 536230008694 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 536230008695 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 536230008696 ligand binding site [chemical binding]; other site 536230008697 homodimer interface [polypeptide binding]; other site 536230008698 NAD(P) binding site [chemical binding]; other site 536230008699 trimer interface B [polypeptide binding]; other site 536230008700 trimer interface A [polypeptide binding]; other site 536230008701 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 536230008702 nudix motif; other site 536230008703 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 536230008704 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 536230008705 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 536230008706 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 536230008707 active site 536230008708 FMN binding site [chemical binding]; other site 536230008709 substrate binding site [chemical binding]; other site 536230008710 3Fe-4S cluster binding site [ion binding]; other site 536230008711 putative glutathione S-transferase; Provisional; Region: PRK10357 536230008712 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 536230008713 putative C-terminal domain interface [polypeptide binding]; other site 536230008714 putative GSH binding site (G-site) [chemical binding]; other site 536230008715 putative dimer interface [polypeptide binding]; other site 536230008716 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 536230008717 dimer interface [polypeptide binding]; other site 536230008718 N-terminal domain interface [polypeptide binding]; other site 536230008719 putative substrate binding pocket (H-site) [chemical binding]; other site 536230008720 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 536230008721 proline aminopeptidase P II; Provisional; Region: PRK10879 536230008722 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 536230008723 active site 536230008724 hypothetical protein; Provisional; Region: PRK06996 536230008725 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 536230008726 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 536230008727 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 536230008728 FMN binding site [chemical binding]; other site 536230008729 active site 536230008730 catalytic residues [active] 536230008731 substrate binding site [chemical binding]; other site 536230008732 DNA-binding protein Fis; Provisional; Region: PRK01905 536230008733 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 536230008734 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 536230008735 purine monophosphate binding site [chemical binding]; other site 536230008736 dimer interface [polypeptide binding]; other site 536230008737 putative catalytic residues [active] 536230008738 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 536230008739 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 536230008740 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 536230008741 active site 536230008742 putative DNA-binding cleft [nucleotide binding]; other site 536230008743 dimer interface [polypeptide binding]; other site 536230008744 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 536230008745 RuvA N terminal domain; Region: RuvA_N; pfam01330 536230008746 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 536230008747 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 536230008748 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230008749 Walker A motif; other site 536230008750 ATP binding site [chemical binding]; other site 536230008751 Walker B motif; other site 536230008752 arginine finger; other site 536230008753 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 536230008754 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 536230008755 Putative ParB-like nuclease; Region: ParBc_2; cl17538 536230008756 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 536230008757 catalytic core [active] 536230008758 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 536230008759 putative active site [active] 536230008760 dimerization interface [polypeptide binding]; other site 536230008761 putative tRNAtyr binding site [nucleotide binding]; other site 536230008762 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 536230008763 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 536230008764 active site 536230008765 HIGH motif; other site 536230008766 dimer interface [polypeptide binding]; other site 536230008767 KMSKS motif; other site 536230008768 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 536230008769 RNA binding surface [nucleotide binding]; other site 536230008770 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 536230008771 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 536230008772 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 536230008773 C-terminal domain interface [polypeptide binding]; other site 536230008774 GSH binding site (G-site) [chemical binding]; other site 536230008775 dimer interface [polypeptide binding]; other site 536230008776 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 536230008777 N-terminal domain interface [polypeptide binding]; other site 536230008778 putative dimer interface [polypeptide binding]; other site 536230008779 active site 536230008780 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 536230008781 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 536230008782 C-terminal domain interface [polypeptide binding]; other site 536230008783 GSH binding site (G-site) [chemical binding]; other site 536230008784 dimer interface [polypeptide binding]; other site 536230008785 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 536230008786 N-terminal domain interface [polypeptide binding]; other site 536230008787 dimer interface [polypeptide binding]; other site 536230008788 substrate binding pocket (H-site) [chemical binding]; other site 536230008789 Cupin; Region: Cupin_6; pfam12852 536230008790 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536230008791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230008792 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230008793 Transposase; Region: DDE_Tnp_ISL3; pfam01610 536230008794 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 536230008795 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 536230008796 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 536230008797 23S rRNA interface [nucleotide binding]; other site 536230008798 L3 interface [polypeptide binding]; other site 536230008799 OsmC-like protein; Region: OsmC; cl00767 536230008800 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 536230008801 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 536230008802 active site 536230008803 substrate binding pocket [chemical binding]; other site 536230008804 dimer interface [polypeptide binding]; other site 536230008805 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 536230008806 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 536230008807 putative active site [active] 536230008808 putative dimer interface [polypeptide binding]; other site 536230008809 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536230008810 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 536230008811 putative dimer interface [polypeptide binding]; other site 536230008812 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536230008813 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 536230008814 putative dimer interface [polypeptide binding]; other site 536230008815 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 536230008816 oligomerisation interface [polypeptide binding]; other site 536230008817 mobile loop; other site 536230008818 roof hairpin; other site 536230008819 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 536230008820 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 536230008821 ring oligomerisation interface [polypeptide binding]; other site 536230008822 ATP/Mg binding site [chemical binding]; other site 536230008823 stacking interactions; other site 536230008824 hinge regions; other site 536230008825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230008826 Transposase; Region: DDE_Tnp_ISL3; pfam01610 536230008827 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536230008828 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536230008829 Walker A/P-loop; other site 536230008830 ATP binding site [chemical binding]; other site 536230008831 Q-loop/lid; other site 536230008832 ABC transporter signature motif; other site 536230008833 Walker B; other site 536230008834 D-loop; other site 536230008835 H-loop/switch region; other site 536230008836 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230008837 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230008838 dimer interface [polypeptide binding]; other site 536230008839 conserved gate region; other site 536230008840 putative PBP binding loops; other site 536230008841 ABC-ATPase subunit interface; other site 536230008842 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536230008843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230008844 dimer interface [polypeptide binding]; other site 536230008845 conserved gate region; other site 536230008846 putative PBP binding loops; other site 536230008847 ABC-ATPase subunit interface; other site 536230008848 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 536230008849 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230008850 substrate binding pocket [chemical binding]; other site 536230008851 membrane-bound complex binding site; other site 536230008852 hinge residues; other site 536230008853 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 536230008854 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 536230008855 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 536230008856 NAD(P) binding site [chemical binding]; other site 536230008857 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230008858 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230008859 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 536230008860 dimerization interface [polypeptide binding]; other site 536230008861 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 536230008862 adenylosuccinate lyase; Provisional; Region: PRK09285 536230008863 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 536230008864 tetramer interface [polypeptide binding]; other site 536230008865 active site 536230008866 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 536230008867 ATP-binding site [chemical binding]; other site 536230008868 Gluconate-6-phosphate binding site [chemical binding]; other site 536230008869 Shikimate kinase; Region: SKI; pfam01202 536230008870 GntP family permease; Region: GntP_permease; pfam02447 536230008871 fructuronate transporter; Provisional; Region: PRK10034; cl15264 536230008872 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 536230008873 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 536230008874 active site 536230008875 intersubunit interface [polypeptide binding]; other site 536230008876 catalytic residue [active] 536230008877 phosphogluconate dehydratase; Validated; Region: PRK09054 536230008878 6-phosphogluconate dehydratase; Region: edd; TIGR01196 536230008879 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 536230008880 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536230008881 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 536230008882 putative active site [active] 536230008883 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 536230008884 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 536230008885 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 536230008886 putative catalytic cysteine [active] 536230008887 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 536230008888 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 536230008889 Lipopolysaccharide-assembly; Region: LptE; cl01125 536230008890 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 536230008891 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 536230008892 HIGH motif; other site 536230008893 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 536230008894 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536230008895 active site 536230008896 KMSKS motif; other site 536230008897 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 536230008898 tRNA binding surface [nucleotide binding]; other site 536230008899 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 536230008900 TolR protein; Region: tolR; TIGR02801 536230008901 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 536230008902 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 536230008903 dihydrodipicolinate reductase; Provisional; Region: PRK00048 536230008904 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 536230008905 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 536230008906 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 536230008907 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 536230008908 ferric uptake regulator; Provisional; Region: fur; PRK09462 536230008909 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536230008910 metal binding site 2 [ion binding]; metal-binding site 536230008911 putative DNA binding helix; other site 536230008912 metal binding site 1 [ion binding]; metal-binding site 536230008913 dimer interface [polypeptide binding]; other site 536230008914 structural Zn2+ binding site [ion binding]; other site 536230008915 ureidoglycolate hydrolase; Provisional; Region: PRK13395 536230008916 allantoicase; Provisional; Region: PRK13257 536230008917 Allantoicase repeat; Region: Allantoicase; pfam03561 536230008918 Allantoicase repeat; Region: Allantoicase; pfam03561 536230008919 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 536230008920 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536230008921 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536230008922 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536230008923 DNA-binding site [nucleotide binding]; DNA binding site 536230008924 FCD domain; Region: FCD; pfam07729 536230008925 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 536230008926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230008927 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 536230008928 dimerization interface [polypeptide binding]; other site 536230008929 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 536230008930 active site clefts [active] 536230008931 zinc binding site [ion binding]; other site 536230008932 dimer interface [polypeptide binding]; other site 536230008933 cyanate hydratase; Validated; Region: PRK02866 536230008934 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 536230008935 oligomer interface [polypeptide binding]; other site 536230008936 active site 536230008937 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 536230008938 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 536230008939 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 536230008940 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 536230008941 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 536230008942 transketolase; Reviewed; Region: PRK12753 536230008943 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 536230008944 TPP-binding site [chemical binding]; other site 536230008945 dimer interface [polypeptide binding]; other site 536230008946 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 536230008947 PYR/PP interface [polypeptide binding]; other site 536230008948 dimer interface [polypeptide binding]; other site 536230008949 TPP binding site [chemical binding]; other site 536230008950 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536230008951 spermidine synthase; Provisional; Region: PRK00811 536230008952 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 536230008953 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 536230008954 putative dimer interface [polypeptide binding]; other site 536230008955 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536230008956 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 536230008957 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 536230008958 putative RNAase interaction site [polypeptide binding]; other site 536230008959 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 536230008960 active site 536230008961 barstar interaction site; other site 536230008962 malic enzyme; Reviewed; Region: PRK12862 536230008963 Malic enzyme, N-terminal domain; Region: malic; pfam00390 536230008964 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 536230008965 putative NAD(P) binding site [chemical binding]; other site 536230008966 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 536230008967 thiamine monophosphate kinase; Provisional; Region: PRK05731 536230008968 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 536230008969 ATP binding site [chemical binding]; other site 536230008970 dimerization interface [polypeptide binding]; other site 536230008971 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 536230008972 tetramer interfaces [polypeptide binding]; other site 536230008973 binuclear metal-binding site [ion binding]; other site 536230008974 Competence-damaged protein; Region: CinA; pfam02464 536230008975 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 536230008976 active site 536230008977 dimer interface [polypeptide binding]; other site 536230008978 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 536230008979 active site 536230008980 catalytic residues [active] 536230008981 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 536230008982 classical (c) SDRs; Region: SDR_c; cd05233 536230008983 NAD(P) binding site [chemical binding]; other site 536230008984 active site 536230008985 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230008986 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 536230008987 TM-ABC transporter signature motif; other site 536230008988 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 536230008989 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536230008990 Walker A/P-loop; other site 536230008991 ATP binding site [chemical binding]; other site 536230008992 Q-loop/lid; other site 536230008993 ABC transporter signature motif; other site 536230008994 Walker B; other site 536230008995 D-loop; other site 536230008996 H-loop/switch region; other site 536230008997 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536230008998 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 536230008999 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 536230009000 ligand binding site [chemical binding]; other site 536230009001 short chain dehydrogenase; Provisional; Region: PRK07063 536230009002 classical (c) SDRs; Region: SDR_c; cd05233 536230009003 NAD(P) binding site [chemical binding]; other site 536230009004 active site 536230009005 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 536230009006 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 536230009007 active site 536230009008 intersubunit interface [polypeptide binding]; other site 536230009009 catalytic residue [active] 536230009010 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 536230009011 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 536230009012 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536230009013 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536230009014 Bacterial transcriptional regulator; Region: IclR; pfam01614 536230009015 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 536230009016 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 536230009017 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 536230009018 Transglycosylase; Region: Transgly; cl17702 536230009019 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 536230009020 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 536230009021 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 536230009022 shikimate binding site; other site 536230009023 NAD(P) binding site [chemical binding]; other site 536230009024 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 536230009025 RNB domain; Region: RNB; pfam00773 536230009026 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 536230009027 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 536230009028 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 536230009029 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536230009030 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230009031 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230009032 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 536230009033 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536230009034 catalytic residues [active] 536230009035 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 536230009036 Dehydroquinase class II; Region: DHquinase_II; pfam01220 536230009037 active site 536230009038 trimer interface [polypeptide binding]; other site 536230009039 dimer interface [polypeptide binding]; other site 536230009040 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 536230009041 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 536230009042 carboxyltransferase (CT) interaction site; other site 536230009043 biotinylation site [posttranslational modification]; other site 536230009044 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 536230009045 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536230009046 ATP-grasp domain; Region: ATP-grasp_4; cl17255 536230009047 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 536230009048 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 536230009049 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 536230009050 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 536230009051 S-adenosylmethionine binding site [chemical binding]; other site 536230009052 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 536230009053 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 536230009054 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 536230009055 dimer interface [polypeptide binding]; other site 536230009056 catalytic triad [active] 536230009057 peroxidatic and resolving cysteines [active] 536230009058 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536230009059 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 536230009060 substrate binding site [chemical binding]; other site 536230009061 ATP binding site [chemical binding]; other site 536230009062 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 536230009063 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 536230009064 dimer interface [polypeptide binding]; other site 536230009065 putative radical transfer pathway; other site 536230009066 diiron center [ion binding]; other site 536230009067 tyrosyl radical; other site 536230009068 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 536230009069 ATP cone domain; Region: ATP-cone; pfam03477 536230009070 Class I ribonucleotide reductase; Region: RNR_I; cd01679 536230009071 active site 536230009072 dimer interface [polypeptide binding]; other site 536230009073 catalytic residues [active] 536230009074 effector binding site; other site 536230009075 R2 peptide binding site; other site 536230009076 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 536230009077 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 536230009078 amidase catalytic site [active] 536230009079 Zn binding residues [ion binding]; other site 536230009080 substrate binding site [chemical binding]; other site 536230009081 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 536230009082 signal recognition particle protein; Provisional; Region: PRK10867 536230009083 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 536230009084 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 536230009085 P loop; other site 536230009086 GTP binding site [chemical binding]; other site 536230009087 Signal peptide binding domain; Region: SRP_SPB; pfam02978 536230009088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230009089 active site 536230009090 MarC family integral membrane protein; Region: MarC; cl00919 536230009091 prolyl-tRNA synthetase; Provisional; Region: PRK09194 536230009092 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 536230009093 dimer interface [polypeptide binding]; other site 536230009094 motif 1; other site 536230009095 active site 536230009096 motif 2; other site 536230009097 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 536230009098 putative deacylase active site [active] 536230009099 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 536230009100 active site 536230009101 motif 3; other site 536230009102 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 536230009103 anticodon binding site; other site 536230009104 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 536230009105 putative active site [active] 536230009106 Ap4A binding site [chemical binding]; other site 536230009107 nudix motif; other site 536230009108 putative metal binding site [ion binding]; other site 536230009109 CNP1-like family; Region: CNP1; pfam08750 536230009110 gamma-glutamyl kinase; Provisional; Region: PRK05429 536230009111 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 536230009112 nucleotide binding site [chemical binding]; other site 536230009113 homotetrameric interface [polypeptide binding]; other site 536230009114 putative phosphate binding site [ion binding]; other site 536230009115 putative allosteric binding site; other site 536230009116 PUA domain; Region: PUA; pfam01472 536230009117 GTPase CgtA; Reviewed; Region: obgE; PRK12298 536230009118 GTP1/OBG; Region: GTP1_OBG; pfam01018 536230009119 Obg GTPase; Region: Obg; cd01898 536230009120 G1 box; other site 536230009121 GTP/Mg2+ binding site [chemical binding]; other site 536230009122 Switch I region; other site 536230009123 G2 box; other site 536230009124 G3 box; other site 536230009125 Switch II region; other site 536230009126 G4 box; other site 536230009127 G5 box; other site 536230009128 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 536230009129 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 536230009130 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 536230009131 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 536230009132 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 536230009133 substrate binding pocket [chemical binding]; other site 536230009134 chain length determination region; other site 536230009135 substrate-Mg2+ binding site; other site 536230009136 catalytic residues [active] 536230009137 aspartate-rich region 1; other site 536230009138 active site lid residues [active] 536230009139 aspartate-rich region 2; other site 536230009140 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 536230009141 Domain of unknown function DUF21; Region: DUF21; pfam01595 536230009142 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 536230009143 Transporter associated domain; Region: CorC_HlyC; smart01091 536230009144 Type II/IV secretion system protein; Region: T2SE; pfam00437 536230009145 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 536230009146 Walker A motif; other site 536230009147 ATP binding site [chemical binding]; other site 536230009148 Walker B motif; other site 536230009149 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 536230009150 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230009151 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230009152 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 536230009153 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 536230009154 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 536230009155 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 536230009156 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 536230009157 CoA-binding site [chemical binding]; other site 536230009158 ATP-binding [chemical binding]; other site 536230009159 hypothetical protein; Provisional; Region: PRK05287 536230009160 Domain of unknown function (DUF329); Region: DUF329; pfam03884 536230009161 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 536230009162 active site 536230009163 8-oxo-dGMP binding site [chemical binding]; other site 536230009164 nudix motif; other site 536230009165 metal binding site [ion binding]; metal-binding site 536230009166 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 536230009167 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230009168 Walker A motif; other site 536230009169 ATP binding site [chemical binding]; other site 536230009170 Walker B motif; other site 536230009171 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 536230009172 heterotetramer interface [polypeptide binding]; other site 536230009173 active site pocket [active] 536230009174 cleavage site 536230009175 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 536230009176 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 536230009177 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 536230009178 SEC-C motif; Region: SEC-C; pfam02810 536230009179 Protein of unknown function (DUF721); Region: DUF721; pfam05258 536230009180 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 536230009181 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 536230009182 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 536230009183 catalytic triad [active] 536230009184 dimer interface [polypeptide binding]; other site 536230009185 cell division protein FtsZ; Validated; Region: PRK09330 536230009186 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 536230009187 nucleotide binding site [chemical binding]; other site 536230009188 SulA interaction site; other site 536230009189 cell division protein FtsA; Region: ftsA; TIGR01174 536230009190 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536230009191 nucleotide binding site [chemical binding]; other site 536230009192 Cell division protein FtsA; Region: FtsA; pfam14450 536230009193 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 536230009194 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 536230009195 Cell division protein FtsQ; Region: FtsQ; pfam03799 536230009196 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 536230009197 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 536230009198 ATP-grasp domain; Region: ATP-grasp_4; cl17255 536230009199 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 536230009200 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536230009201 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230009202 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230009203 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 536230009204 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 536230009205 active site 536230009206 homodimer interface [polypeptide binding]; other site 536230009207 cell division protein FtsW; Region: ftsW; TIGR02614 536230009208 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 536230009209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230009210 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230009211 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 536230009212 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 536230009213 Mg++ binding site [ion binding]; other site 536230009214 putative catalytic motif [active] 536230009215 putative substrate binding site [chemical binding]; other site 536230009216 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 536230009217 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536230009218 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230009219 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230009220 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 536230009221 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536230009222 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536230009223 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 536230009224 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536230009225 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 536230009226 Cell division protein FtsL; Region: FtsL; pfam04999 536230009227 MraW methylase family; Region: Methyltransf_5; cl17771 536230009228 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 536230009229 cell division protein MraZ; Reviewed; Region: PRK00326 536230009230 MraZ protein; Region: MraZ; pfam02381 536230009231 MraZ protein; Region: MraZ; pfam02381 536230009232 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 536230009233 diiron binding motif [ion binding]; other site 536230009234 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230009235 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230009236 trimer interface [polypeptide binding]; other site 536230009237 eyelet of channel; other site 536230009238 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 536230009239 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 536230009240 acyl-activating enzyme (AAE) consensus motif; other site 536230009241 putative AMP binding site [chemical binding]; other site 536230009242 putative active site [active] 536230009243 putative CoA binding site [chemical binding]; other site 536230009244 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 536230009245 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 536230009246 putative [4Fe-4S] binding site [ion binding]; other site 536230009247 putative molybdopterin cofactor binding site [chemical binding]; other site 536230009248 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 536230009249 putative molybdopterin cofactor binding site; other site 536230009250 enoyl-CoA hydratase; Provisional; Region: PRK05862 536230009251 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 536230009252 substrate binding site [chemical binding]; other site 536230009253 oxyanion hole (OAH) forming residues; other site 536230009254 trimer interface [polypeptide binding]; other site 536230009255 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 536230009256 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230009257 NAD(P) binding site [chemical binding]; other site 536230009258 catalytic residues [active] 536230009259 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 536230009260 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 536230009261 dimer interface [polypeptide binding]; other site 536230009262 active site 536230009263 enoyl-CoA hydratase; Provisional; Region: PRK08140 536230009264 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 536230009265 substrate binding site [chemical binding]; other site 536230009266 oxyanion hole (OAH) forming residues; other site 536230009267 trimer interface [polypeptide binding]; other site 536230009268 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 536230009269 CoenzymeA binding site [chemical binding]; other site 536230009270 subunit interaction site [polypeptide binding]; other site 536230009271 PHB binding site; other site 536230009272 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 536230009273 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 536230009274 active site 536230009275 AMP binding site [chemical binding]; other site 536230009276 homodimer interface [polypeptide binding]; other site 536230009277 acyl-activating enzyme (AAE) consensus motif; other site 536230009278 CoA binding site [chemical binding]; other site 536230009279 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 536230009280 MltA specific insert domain; Region: MltA; smart00925 536230009281 3D domain; Region: 3D; pfam06725 536230009282 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 536230009283 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 536230009284 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 536230009285 substrate binding site [chemical binding]; other site 536230009286 hexamer interface [polypeptide binding]; other site 536230009287 metal binding site [ion binding]; metal-binding site 536230009288 phosphoglycolate phosphatase; Provisional; Region: PRK13222 536230009289 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 536230009290 motif II; other site 536230009291 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 536230009292 anthranilate synthase component I; Provisional; Region: PRK13565 536230009293 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 536230009294 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 536230009295 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 536230009296 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 536230009297 glutamine binding [chemical binding]; other site 536230009298 catalytic triad [active] 536230009299 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 536230009300 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536230009301 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 536230009302 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 536230009303 active site 536230009304 ribulose/triose binding site [chemical binding]; other site 536230009305 phosphate binding site [ion binding]; other site 536230009306 substrate (anthranilate) binding pocket [chemical binding]; other site 536230009307 product (indole) binding pocket [chemical binding]; other site 536230009308 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 536230009309 putative active site [active] 536230009310 putative metal binding residues [ion binding]; other site 536230009311 signature motif; other site 536230009312 putative triphosphate binding site [ion binding]; other site 536230009313 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 536230009314 ligand binding site [chemical binding]; other site 536230009315 active site 536230009316 UGI interface [polypeptide binding]; other site 536230009317 catalytic site [active] 536230009318 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536230009319 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536230009320 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 536230009321 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 536230009322 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230009323 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 536230009324 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 536230009325 dimerization domain [polypeptide binding]; other site 536230009326 dimer interface [polypeptide binding]; other site 536230009327 catalytic residues [active] 536230009328 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 536230009329 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 536230009330 GTP-binding protein YchF; Reviewed; Region: PRK09601 536230009331 YchF GTPase; Region: YchF; cd01900 536230009332 G1 box; other site 536230009333 GTP/Mg2+ binding site [chemical binding]; other site 536230009334 Switch I region; other site 536230009335 G2 box; other site 536230009336 Switch II region; other site 536230009337 G3 box; other site 536230009338 G4 box; other site 536230009339 G5 box; other site 536230009340 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 536230009341 NADH dehydrogenase subunit B; Validated; Region: PRK06411 536230009342 Helix-turn-helix domain; Region: HTH_18; pfam12833 536230009343 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 536230009344 Spore germination protein; Region: Spore_permease; cl17796 536230009345 Protein of unknown function (DUF419); Region: DUF419; cl15265 536230009346 Protein of unknown function (DUF419); Region: DUF419; cl15265 536230009347 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 536230009348 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 536230009349 putative active site [active] 536230009350 catalytic site [active] 536230009351 putative metal binding site [ion binding]; other site 536230009352 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 536230009353 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 536230009354 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230009355 Walker A/P-loop; other site 536230009356 ATP binding site [chemical binding]; other site 536230009357 Q-loop/lid; other site 536230009358 ABC transporter signature motif; other site 536230009359 Walker B; other site 536230009360 D-loop; other site 536230009361 H-loop/switch region; other site 536230009362 ABC transporter; Region: ABC_tran_2; pfam12848 536230009363 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536230009364 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 536230009365 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 536230009366 Isochorismatase family; Region: Isochorismatase; pfam00857 536230009367 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 536230009368 catalytic triad [active] 536230009369 conserved cis-peptide bond; other site 536230009370 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536230009371 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 536230009372 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 536230009373 active site 536230009374 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 536230009375 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 536230009376 tRNA; other site 536230009377 putative tRNA binding site [nucleotide binding]; other site 536230009378 putative NADP binding site [chemical binding]; other site 536230009379 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 536230009380 peptide chain release factor 1; Validated; Region: prfA; PRK00591 536230009381 This domain is found in peptide chain release factors; Region: PCRF; smart00937 536230009382 RF-1 domain; Region: RF-1; pfam00472 536230009383 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 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; cd02440 536230009385 S-adenosylmethionine binding site [chemical binding]; other site 536230009386 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 536230009387 putative GSH binding site [chemical binding]; other site 536230009388 catalytic residues [active] 536230009389 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 536230009390 Flavoprotein; Region: Flavoprotein; pfam02441 536230009391 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 536230009392 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 536230009393 putative active site [active] 536230009394 metal binding site [ion binding]; metal-binding site 536230009395 amino acid transporter; Region: 2A0306; TIGR00909 536230009396 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536230009397 DNA-binding site [nucleotide binding]; DNA binding site 536230009398 RNA-binding motif; other site 536230009399 putative chaperone; Provisional; Region: PRK11678 536230009400 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 536230009401 nucleotide binding site [chemical binding]; other site 536230009402 putative NEF/HSP70 interaction site [polypeptide binding]; other site 536230009403 SBD interface [polypeptide binding]; other site 536230009404 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 536230009405 putative FMN binding site [chemical binding]; other site 536230009406 D-galactonate transporter; Region: 2A0114; TIGR00893 536230009407 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 536230009408 putative substrate translocation pore; other site 536230009409 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230009410 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230009411 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 536230009412 Methyltransferase domain; Region: Methyltransf_32; pfam13679 536230009413 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536230009414 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 536230009415 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 536230009416 S-adenosylmethionine binding site [chemical binding]; other site 536230009417 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 536230009418 Water Stress and Hypersensitive response; Region: WHy; smart00769 536230009419 Peptidase family M1; Region: Peptidase_M1; pfam01433 536230009420 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 536230009421 Zn binding site [ion binding]; other site 536230009422 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 536230009423 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536230009424 HlyD family secretion protein; Region: HlyD_3; pfam13437 536230009425 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 536230009426 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 536230009427 putative active site [active] 536230009428 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536230009429 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 536230009430 Walker A/P-loop; other site 536230009431 ATP binding site [chemical binding]; other site 536230009432 Q-loop/lid; other site 536230009433 ABC transporter signature motif; other site 536230009434 Walker B; other site 536230009435 D-loop; other site 536230009436 H-loop/switch region; other site 536230009437 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 536230009438 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 536230009439 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 536230009440 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 536230009441 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 536230009442 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 536230009443 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 536230009444 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 536230009445 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 536230009446 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230009447 ligand binding site [chemical binding]; other site 536230009448 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 536230009449 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 536230009450 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 536230009451 Clp amino terminal domain; Region: Clp_N; pfam02861 536230009452 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230009453 Walker A motif; other site 536230009454 ATP binding site [chemical binding]; other site 536230009455 Walker B motif; other site 536230009456 arginine finger; other site 536230009457 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230009458 Walker A motif; other site 536230009459 ATP binding site [chemical binding]; other site 536230009460 Walker B motif; other site 536230009461 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536230009462 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 536230009463 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 536230009464 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 536230009465 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 536230009466 Protein of unknown function (DUF796); Region: DUF796; pfam05638 536230009467 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 536230009468 Protein of unknown function (DUF877); Region: DUF877; pfam05943 536230009469 Protein of unknown function (DUF770); Region: DUF770; pfam05591 536230009470 TPR repeat; Region: TPR_11; pfam13414 536230009471 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 536230009472 TPR motif; other site 536230009473 binding surface 536230009474 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 536230009475 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 536230009476 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 536230009477 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 536230009478 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 536230009479 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 536230009480 DNA methylase; Region: N6_N4_Mtase; pfam01555 536230009481 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 536230009482 Baseplate J-like protein; Region: Baseplate_J; cl01294 536230009483 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 536230009484 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 536230009485 portal vertex protein; Provisional; Region: Q; PHA02536 536230009486 Phage portal protein; Region: Phage_portal; pfam04860 536230009487 terminase ATPase subunit; Provisional; Region: P; PHA02535 536230009488 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 536230009489 DNA binding site [nucleotide binding] 536230009490 active site 536230009491 Int/Topo IB signature motif; other site 536230009492 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 536230009493 stringent starvation protein A; Provisional; Region: sspA; PRK09481 536230009494 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 536230009495 C-terminal domain interface [polypeptide binding]; other site 536230009496 putative GSH binding site (G-site) [chemical binding]; other site 536230009497 dimer interface [polypeptide binding]; other site 536230009498 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 536230009499 dimer interface [polypeptide binding]; other site 536230009500 N-terminal domain interface [polypeptide binding]; other site 536230009501 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 536230009502 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 536230009503 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 536230009504 Qi binding site; other site 536230009505 intrachain domain interface; other site 536230009506 interchain domain interface [polypeptide binding]; other site 536230009507 heme bH binding site [chemical binding]; other site 536230009508 heme bL binding site [chemical binding]; other site 536230009509 Qo binding site; other site 536230009510 interchain domain interface [polypeptide binding]; other site 536230009511 intrachain domain interface; other site 536230009512 Qi binding site; other site 536230009513 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 536230009514 Qo binding site; other site 536230009515 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 536230009516 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 536230009517 [2Fe-2S] cluster binding site [ion binding]; other site 536230009518 Uncharacterized conserved protein [Function unknown]; Region: COG0327 536230009519 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 536230009520 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 536230009521 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536230009522 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 536230009523 protein binding site [polypeptide binding]; other site 536230009524 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 536230009525 sec-independent translocase; Provisional; Region: tatB; PRK01919 536230009526 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 536230009527 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 536230009528 nucleotide binding site/active site [active] 536230009529 HIT family signature motif; other site 536230009530 catalytic residue [active] 536230009531 Predicted membrane protein [Function unknown]; Region: COG3671 536230009532 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 536230009533 metal binding site [ion binding]; metal-binding site 536230009534 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 536230009535 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 536230009536 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 536230009537 substrate binding site [chemical binding]; other site 536230009538 glutamase interaction surface [polypeptide binding]; other site 536230009539 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 536230009540 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 536230009541 catalytic residues [active] 536230009542 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 536230009543 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 536230009544 putative active site [active] 536230009545 oxyanion strand; other site 536230009546 catalytic triad [active] 536230009547 MarC family integral membrane protein; Region: MarC; cl00919 536230009548 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 536230009549 putative active site pocket [active] 536230009550 4-fold oligomerization interface [polypeptide binding]; other site 536230009551 metal binding residues [ion binding]; metal-binding site 536230009552 3-fold/trimer interface [polypeptide binding]; other site 536230009553 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 536230009554 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 536230009555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230009556 homodimer interface [polypeptide binding]; other site 536230009557 catalytic residue [active] 536230009558 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 536230009559 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 536230009560 NAD binding site [chemical binding]; other site 536230009561 dimerization interface [polypeptide binding]; other site 536230009562 product binding site; other site 536230009563 substrate binding site [chemical binding]; other site 536230009564 zinc binding site [ion binding]; other site 536230009565 catalytic residues [active] 536230009566 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 536230009567 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 536230009568 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 536230009569 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 536230009570 hinge; other site 536230009571 active site 536230009572 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 536230009573 ABC-2 type transporter; Region: ABC2_membrane; cl17235 536230009574 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536230009575 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536230009576 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536230009577 Walker A/P-loop; other site 536230009578 ATP binding site [chemical binding]; other site 536230009579 Q-loop/lid; other site 536230009580 ABC transporter signature motif; other site 536230009581 Walker B; other site 536230009582 D-loop; other site 536230009583 H-loop/switch region; other site 536230009584 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 536230009585 anti sigma factor interaction site; other site 536230009586 regulatory phosphorylation site [posttranslational modification]; other site 536230009587 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 536230009588 VacJ like lipoprotein; Region: VacJ; cl01073 536230009589 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 536230009590 mce related protein; Region: MCE; pfam02470 536230009591 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 536230009592 Permease; Region: Permease; pfam02405 536230009593 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 536230009594 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 536230009595 Walker A/P-loop; other site 536230009596 ATP binding site [chemical binding]; other site 536230009597 Q-loop/lid; other site 536230009598 ABC transporter signature motif; other site 536230009599 Walker B; other site 536230009600 D-loop; other site 536230009601 H-loop/switch region; other site 536230009602 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 536230009603 thiamine phosphate binding site [chemical binding]; other site 536230009604 active site 536230009605 pyrophosphate binding site [ion binding]; other site 536230009606 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 536230009607 ThiS interaction site; other site 536230009608 putative active site [active] 536230009609 tetramer interface [polypeptide binding]; other site 536230009610 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 536230009611 thiS-thiF/thiG interaction site; other site 536230009612 FAD dependent oxidoreductase; Region: DAO; pfam01266 536230009613 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 536230009614 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 536230009615 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 536230009616 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 536230009617 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 536230009618 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536230009619 amino acid carrier protein; Region: agcS; TIGR00835 536230009620 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 536230009621 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536230009622 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536230009623 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 536230009624 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 536230009625 active site 536230009626 dimer interface [polypeptide binding]; other site 536230009627 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 536230009628 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 536230009629 active site 536230009630 FMN binding site [chemical binding]; other site 536230009631 substrate binding site [chemical binding]; other site 536230009632 3Fe-4S cluster binding site [ion binding]; other site 536230009633 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 536230009634 domain interface; other site 536230009635 Transposase IS200 like; Region: Y1_Tnp; cl00848 536230009636 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 536230009637 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 536230009638 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 536230009639 active site 536230009640 catalytic site [active] 536230009641 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 536230009642 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 536230009643 Walker A/P-loop; other site 536230009644 ATP binding site [chemical binding]; other site 536230009645 Q-loop/lid; other site 536230009646 ABC transporter signature motif; other site 536230009647 Walker B; other site 536230009648 D-loop; other site 536230009649 H-loop/switch region; other site 536230009650 TOBE domain; Region: TOBE_2; pfam08402 536230009651 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 536230009652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230009653 dimer interface [polypeptide binding]; other site 536230009654 conserved gate region; other site 536230009655 putative PBP binding loops; other site 536230009656 ABC-ATPase subunit interface; other site 536230009657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230009658 dimer interface [polypeptide binding]; other site 536230009659 conserved gate region; other site 536230009660 putative PBP binding loops; other site 536230009661 ABC-ATPase subunit interface; other site 536230009662 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536230009663 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 536230009664 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 536230009665 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536230009666 Zn2+ binding site [ion binding]; other site 536230009667 Mg2+ binding site [ion binding]; other site 536230009668 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 536230009669 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 536230009670 active site 536230009671 dimer interface [polypeptide binding]; other site 536230009672 metal binding site [ion binding]; metal-binding site 536230009673 shikimate kinase; Reviewed; Region: aroK; PRK00131 536230009674 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 536230009675 ADP binding site [chemical binding]; other site 536230009676 magnesium binding site [ion binding]; other site 536230009677 putative shikimate binding site; other site 536230009678 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 536230009679 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230009680 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 536230009681 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 536230009682 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 536230009683 Transglycosylase; Region: Transgly; pfam00912 536230009684 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536230009685 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...; Region: Frataxin; cd00503 536230009686 putative iron binding site [ion binding]; other site 536230009687 diaminopimelate decarboxylase; Region: lysA; TIGR01048 536230009688 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 536230009689 active site 536230009690 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536230009691 substrate binding site [chemical binding]; other site 536230009692 catalytic residues [active] 536230009693 dimer interface [polypeptide binding]; other site 536230009694 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 536230009695 TMAO/DMSO reductase; Reviewed; Region: PRK05363 536230009696 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 536230009697 Moco binding site; other site 536230009698 metal coordination site [ion binding]; other site 536230009699 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 536230009700 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 536230009701 ResB-like family; Region: ResB; pfam05140 536230009702 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 536230009703 ResB-like family; Region: ResB; pfam05140 536230009704 Cytochrome c553 [Energy production and conversion]; Region: COG2863 536230009705 Cytochrome c; Region: Cytochrom_C; cl11414 536230009706 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 536230009707 G1 box; other site 536230009708 GTP/Mg2+ binding site [chemical binding]; other site 536230009709 Switch I region; other site 536230009710 G2 box; other site 536230009711 G3 box; other site 536230009712 Switch II region; other site 536230009713 G4 box; other site 536230009714 G5 box; other site 536230009715 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 536230009716 dimer interface [polypeptide binding]; other site 536230009717 active site 536230009718 aspartate-rich active site metal binding site; other site 536230009719 allosteric magnesium binding site [ion binding]; other site 536230009720 Schiff base residues; other site 536230009721 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 536230009722 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 536230009723 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 536230009724 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 536230009725 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536230009726 DsbD alpha interface [polypeptide binding]; other site 536230009727 catalytic residues [active] 536230009728 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 536230009729 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 536230009730 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 536230009731 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 536230009732 alphaNTD homodimer interface [polypeptide binding]; other site 536230009733 alphaNTD - beta interaction site [polypeptide binding]; other site 536230009734 alphaNTD - beta' interaction site [polypeptide binding]; other site 536230009735 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 536230009736 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 536230009737 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 536230009738 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 536230009739 RNA binding surface [nucleotide binding]; other site 536230009740 30S ribosomal protein S11; Validated; Region: PRK05309 536230009741 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 536230009742 30S ribosomal protein S13; Region: bact_S13; TIGR03631 536230009743 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 536230009744 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 536230009745 rRNA binding site [nucleotide binding]; other site 536230009746 predicted 30S ribosome binding site; other site 536230009747 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 536230009748 SecY translocase; Region: SecY; pfam00344 536230009749 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 536230009750 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 536230009751 23S rRNA binding site [nucleotide binding]; other site 536230009752 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 536230009753 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 536230009754 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 536230009755 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 536230009756 5S rRNA interface [nucleotide binding]; other site 536230009757 L27 interface [polypeptide binding]; other site 536230009758 23S rRNA interface [nucleotide binding]; other site 536230009759 L5 interface [polypeptide binding]; other site 536230009760 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 536230009761 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536230009762 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536230009763 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 536230009764 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 536230009765 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 536230009766 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 536230009767 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 536230009768 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 536230009769 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 536230009770 RNA binding site [nucleotide binding]; other site 536230009771 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 536230009772 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 536230009773 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 536230009774 23S rRNA interface [nucleotide binding]; other site 536230009775 putative translocon interaction site; other site 536230009776 signal recognition particle (SRP54) interaction site; other site 536230009777 L23 interface [polypeptide binding]; other site 536230009778 trigger factor interaction site; other site 536230009779 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 536230009780 23S rRNA interface [nucleotide binding]; other site 536230009781 5S rRNA interface [nucleotide binding]; other site 536230009782 putative antibiotic binding site [chemical binding]; other site 536230009783 L25 interface [polypeptide binding]; other site 536230009784 L27 interface [polypeptide binding]; other site 536230009785 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 536230009786 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 536230009787 G-X-X-G motif; other site 536230009788 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 536230009789 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 536230009790 putative translocon binding site; other site 536230009791 protein-rRNA interface [nucleotide binding]; other site 536230009792 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 536230009793 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 536230009794 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 536230009795 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 536230009796 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 536230009797 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 536230009798 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 536230009799 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 536230009800 elongation factor Tu; Reviewed; Region: PRK00049 536230009801 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 536230009802 G1 box; other site 536230009803 GEF interaction site [polypeptide binding]; other site 536230009804 GTP/Mg2+ binding site [chemical binding]; other site 536230009805 Switch I region; other site 536230009806 G2 box; other site 536230009807 G3 box; other site 536230009808 Switch II region; other site 536230009809 G4 box; other site 536230009810 G5 box; other site 536230009811 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 536230009812 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 536230009813 Antibiotic Binding Site [chemical binding]; other site 536230009814 elongation factor G; Reviewed; Region: PRK00007 536230009815 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 536230009816 G1 box; other site 536230009817 putative GEF interaction site [polypeptide binding]; other site 536230009818 GTP/Mg2+ binding site [chemical binding]; other site 536230009819 Switch I region; other site 536230009820 G2 box; other site 536230009821 G3 box; other site 536230009822 Switch II region; other site 536230009823 G4 box; other site 536230009824 G5 box; other site 536230009825 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 536230009826 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 536230009827 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 536230009828 30S ribosomal protein S7; Validated; Region: PRK05302 536230009829 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 536230009830 S17 interaction site [polypeptide binding]; other site 536230009831 S8 interaction site; other site 536230009832 16S rRNA interaction site [nucleotide binding]; other site 536230009833 streptomycin interaction site [chemical binding]; other site 536230009834 23S rRNA interaction site [nucleotide binding]; other site 536230009835 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 536230009836 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 536230009837 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 536230009838 ATP binding site [chemical binding]; other site 536230009839 putative Mg++ binding site [ion binding]; other site 536230009840 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 536230009841 nucleotide binding region [chemical binding]; other site 536230009842 ATP-binding site [chemical binding]; other site 536230009843 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 536230009844 HRDC domain; Region: HRDC; pfam00570 536230009845 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 536230009846 Transposase; Region: DDE_Tnp_ISL3; pfam01610 536230009847 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 536230009848 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 536230009849 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 536230009850 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 536230009851 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 536230009852 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 536230009853 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 536230009854 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 536230009855 DNA binding site [nucleotide binding] 536230009856 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 536230009857 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 536230009858 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 536230009859 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 536230009860 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 536230009861 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 536230009862 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 536230009863 RPB3 interaction site [polypeptide binding]; other site 536230009864 RPB1 interaction site [polypeptide binding]; other site 536230009865 RPB11 interaction site [polypeptide binding]; other site 536230009866 RPB10 interaction site [polypeptide binding]; other site 536230009867 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 536230009868 peripheral dimer interface [polypeptide binding]; other site 536230009869 core dimer interface [polypeptide binding]; other site 536230009870 L10 interface [polypeptide binding]; other site 536230009871 L11 interface [polypeptide binding]; other site 536230009872 putative EF-Tu interaction site [polypeptide binding]; other site 536230009873 putative EF-G interaction site [polypeptide binding]; other site 536230009874 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 536230009875 23S rRNA interface [nucleotide binding]; other site 536230009876 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 536230009877 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 536230009878 mRNA/rRNA interface [nucleotide binding]; other site 536230009879 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 536230009880 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 536230009881 23S rRNA interface [nucleotide binding]; other site 536230009882 L7/L12 interface [polypeptide binding]; other site 536230009883 putative thiostrepton binding site; other site 536230009884 L25 interface [polypeptide binding]; other site 536230009885 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 536230009886 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 536230009887 putative homodimer interface [polypeptide binding]; other site 536230009888 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 536230009889 heterodimer interface [polypeptide binding]; other site 536230009890 homodimer interface [polypeptide binding]; other site 536230009891 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 536230009892 elongation factor Tu; Reviewed; Region: PRK00049 536230009893 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 536230009894 G1 box; other site 536230009895 GEF interaction site [polypeptide binding]; other site 536230009896 GTP/Mg2+ binding site [chemical binding]; other site 536230009897 Switch I region; other site 536230009898 G2 box; other site 536230009899 G3 box; other site 536230009900 Switch II region; other site 536230009901 G4 box; other site 536230009902 G5 box; other site 536230009903 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 536230009904 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 536230009905 Antibiotic Binding Site [chemical binding]; other site 536230009906 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 esterases; Region: XynE_like; cd01830 536230009907 active site 536230009908 catalytic triad [active] 536230009909 oxyanion hole [active] 536230009910 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 536230009911 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 536230009912 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 536230009913 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 536230009914 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 536230009915 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 536230009916 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 536230009917 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-like...; Region: PA_degradation_oxidoreductase_like; cd06214 536230009918 FAD binding pocket [chemical binding]; other site 536230009919 FAD binding motif [chemical binding]; other site 536230009920 phosphate binding motif [ion binding]; other site 536230009921 beta-alpha-beta structure motif; other site 536230009922 NAD(p) ribose binding residues [chemical binding]; other site 536230009923 NAD binding pocket [chemical binding]; other site 536230009924 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 536230009925 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 536230009926 catalytic loop [active] 536230009927 iron binding site [ion binding]; other site 536230009928 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 536230009929 Protein of unknown function; Region: DUF3658; pfam12395 536230009930 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230009931 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230009932 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536230009933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536230009934 Coenzyme A binding pocket [chemical binding]; other site 536230009935 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230009936 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 536230009937 putative DNA binding site [nucleotide binding]; other site 536230009938 putative Zn2+ binding site [ion binding]; other site 536230009939 AsnC family; Region: AsnC_trans_reg; pfam01037 536230009940 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 536230009941 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 536230009942 dimer interface [polypeptide binding]; other site 536230009943 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 536230009944 active site 536230009945 Fe binding site [ion binding]; other site 536230009946 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 536230009947 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 536230009948 dimer interface [polypeptide binding]; other site 536230009949 PYR/PP interface [polypeptide binding]; other site 536230009950 TPP binding site [chemical binding]; other site 536230009951 substrate binding site [chemical binding]; other site 536230009952 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 536230009953 TPP-binding site; other site 536230009954 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 536230009955 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 536230009956 Malic enzyme, N-terminal domain; Region: malic; pfam00390 536230009957 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 536230009958 putative NAD(P) binding site [chemical binding]; other site 536230009959 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 536230009960 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536230009961 active site 536230009962 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 536230009963 substrate binding site [chemical binding]; other site 536230009964 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 536230009965 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536230009966 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 536230009967 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 536230009968 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230009969 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 536230009970 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 536230009971 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230009972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230009973 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 536230009974 dimerization interface [polypeptide binding]; other site 536230009975 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 536230009976 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 536230009977 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536230009978 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 536230009979 Uncharacterized conserved protein [Function unknown]; Region: COG1656 536230009980 Protein of unknown function DUF82; Region: DUF82; pfam01927 536230009981 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 536230009982 Spore germination protein; Region: Spore_permease; cl17796 536230009983 Cytochrome c; Region: Cytochrom_C; cl11414 536230009984 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 536230009985 BON domain; Region: BON; pfam04972 536230009986 BON domain; Region: BON; pfam04972 536230009987 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 536230009988 dimer interface [polypeptide binding]; other site 536230009989 active site 536230009990 hypothetical protein; Provisional; Region: PRK14673 536230009991 Predicted methyltransferases [General function prediction only]; Region: COG0313 536230009992 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 536230009993 putative SAM binding site [chemical binding]; other site 536230009994 putative homodimer interface [polypeptide binding]; other site 536230009995 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 536230009996 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 536230009997 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 536230009998 active site 536230009999 catalytic site [active] 536230010000 substrate binding site [chemical binding]; other site 536230010001 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 536230010002 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230010003 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 536230010004 putative DNA binding site [nucleotide binding]; other site 536230010005 putative Zn2+ binding site [ion binding]; other site 536230010006 AsnC family; Region: AsnC_trans_reg; pfam01037 536230010007 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 536230010008 Cation efflux family; Region: Cation_efflux; pfam01545 536230010009 H-NS histone family; Region: Histone_HNS; pfam00816 536230010010 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 536230010011 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 536230010012 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230010013 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 536230010014 dimerization interface [polypeptide binding]; other site 536230010015 ligand binding site [chemical binding]; other site 536230010016 Nitronate monooxygenase; Region: NMO; pfam03060 536230010017 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 536230010018 FMN binding site [chemical binding]; other site 536230010019 substrate binding site [chemical binding]; other site 536230010020 putative catalytic residue [active] 536230010021 Dienelactone hydrolase family; Region: DLH; pfam01738 536230010022 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 536230010023 Amidase; Region: Amidase; cl11426 536230010024 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 536230010025 FAD binding site [chemical binding]; other site 536230010026 Predicted membrane protein [Function unknown]; Region: COG1950 536230010027 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 536230010028 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 536230010029 homotetramer interface [polypeptide binding]; other site 536230010030 ligand binding site [chemical binding]; other site 536230010031 catalytic site [active] 536230010032 NAD binding site [chemical binding]; other site 536230010033 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 536230010034 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230010035 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536230010036 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230010037 DNA binding residues [nucleotide binding] 536230010038 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536230010039 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 536230010040 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536230010041 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 536230010042 FHIPEP family; Region: FHIPEP; pfam00771 536230010043 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 536230010044 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 536230010045 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 536230010046 dimer interface [polypeptide binding]; other site 536230010047 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 536230010048 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 536230010049 chemotaxis regulator CheZ; Provisional; Region: PRK11166 536230010050 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 536230010051 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 536230010052 active site 536230010053 phosphorylation site [posttranslational modification] 536230010054 intermolecular recognition site; other site 536230010055 dimerization interface [polypeptide binding]; other site 536230010056 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 536230010057 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 536230010058 active site 536230010059 phosphorylation site [posttranslational modification] 536230010060 intermolecular recognition site; other site 536230010061 dimerization interface [polypeptide binding]; other site 536230010062 CheB methylesterase; Region: CheB_methylest; pfam01339 536230010063 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 536230010064 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 536230010065 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 536230010066 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 536230010067 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 536230010068 dimer interface [polypeptide binding]; other site 536230010069 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 536230010070 dimerization interface [polypeptide binding]; other site 536230010071 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230010072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230010073 dimer interface [polypeptide binding]; other site 536230010074 putative CheW interface [polypeptide binding]; other site 536230010075 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 536230010076 putative CheA interaction surface; other site 536230010077 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 536230010078 putative binding surface; other site 536230010079 active site 536230010080 CheY binding; Region: CheY-binding; pfam09078 536230010081 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 536230010082 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 536230010083 ATP binding site [chemical binding]; other site 536230010084 Mg2+ binding site [ion binding]; other site 536230010085 G-X-G motif; other site 536230010086 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 536230010087 Response regulator receiver domain; Region: Response_reg; pfam00072 536230010088 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 536230010089 active site 536230010090 phosphorylation site [posttranslational modification] 536230010091 intermolecular recognition site; other site 536230010092 dimerization interface [polypeptide binding]; other site 536230010093 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 536230010094 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 536230010095 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536230010096 ligand binding site [chemical binding]; other site 536230010097 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 536230010098 flagellar motor protein MotA; Validated; Region: PRK09110 536230010099 transcriptional activator FlhC; Provisional; Region: PRK12722 536230010100 transcriptional activator FlhD; Provisional; Region: PRK02909 536230010101 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536230010102 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 mutant...; Region: GT1_AviGT4_like; cd03802 536230010103 putative ADP-binding pocket [chemical binding]; other site 536230010104 H-NS histone family; Region: Histone_HNS; pfam00816 536230010105 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 536230010106 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-terminal...; Region: MIP; cd00333 536230010107 amphipathic channel; other site 536230010108 Asn-Pro-Ala signature motifs; other site 536230010109 putative hydrolase; Provisional; Region: PRK10976 536230010110 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 536230010111 active site 536230010112 motif I; other site 536230010113 motif II; other site 536230010114 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 536230010115 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 536230010116 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 536230010117 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 536230010118 flagellin; Reviewed; Region: PRK08869 536230010119 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536230010120 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536230010121 flagellar capping protein; Reviewed; Region: fliD; PRK08032 536230010122 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 536230010123 Tetratricopeptide repeat; Region: TPR_16; pfam13432 536230010124 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 536230010125 TPR motif; other site 536230010126 binding surface 536230010127 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 536230010128 binding surface 536230010129 TPR motif; other site 536230010130 Tetratricopeptide repeat; Region: TPR_12; pfam13424 536230010131 TPR repeat; Region: TPR_11; pfam13414 536230010132 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 536230010133 TPR motif; other site 536230010134 binding surface 536230010135 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 536230010136 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 536230010137 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 536230010138 inhibitor-cofactor binding pocket; inhibition site 536230010139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230010140 catalytic residue [active] 536230010141 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536230010142 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 536230010143 dimer interface [polypeptide binding]; other site 536230010144 active site 536230010145 CoA binding pocket [chemical binding]; other site 536230010146 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 536230010147 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 536230010148 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536230010149 dimer interface [polypeptide binding]; other site 536230010150 active site 536230010151 CoA binding pocket [chemical binding]; other site 536230010152 short chain dehydrogenase; Provisional; Region: PRK06500 536230010153 classical (c) SDRs; Region: SDR_c; cd05233 536230010154 NAD(P) binding site [chemical binding]; other site 536230010155 active site 536230010156 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 536230010157 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 536230010158 putative trimer interface [polypeptide binding]; other site 536230010159 putative CoA binding site [chemical binding]; other site 536230010160 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 536230010161 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 536230010162 [2Fe-2S] cluster binding site [ion binding]; other site 536230010163 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 536230010164 alpha subunit interface [polypeptide binding]; other site 536230010165 active site 536230010166 substrate binding site [chemical binding]; other site 536230010167 Fe binding site [ion binding]; other site 536230010168 Methyltransferase domain; Region: Methyltransf_23; pfam13489 536230010169 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 536230010170 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 536230010171 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 536230010172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 536230010173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 536230010174 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 536230010175 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 536230010176 Cache domain; Region: Cache_1; pfam02743 536230010177 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 536230010178 dimerization interface [polypeptide binding]; other site 536230010179 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536230010180 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536230010181 dimer interface [polypeptide binding]; other site 536230010182 putative CheW interface [polypeptide binding]; other site 536230010183 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536230010184 FAD binding domain; Region: FAD_binding_4; pfam01565 536230010185 Berberine and berberine like; Region: BBE; pfam08031 536230010186 Chitin binding domain; Region: Chitin_bind_3; pfam03067 536230010187 Cytochrome c; Region: Cytochrom_C; cl11414 536230010188 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 536230010189 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 536230010190 Part of AAA domain; Region: AAA_19; pfam13245 536230010191 Family description; Region: UvrD_C_2; pfam13538 536230010192 SGNH_hydrolase subfamily, FeeA, 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...; Region: FeeA_FeeB_like; cd01836 536230010193 oxyanion hole [active] 536230010194 putative oxidoreductase; Provisional; Region: PRK11579 536230010195 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536230010196 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536230010197 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 536230010198 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 536230010199 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 536230010200 lipoyl attachment site [posttranslational modification]; other site 536230010201 glycine dehydrogenase; Provisional; Region: PRK05367 536230010202 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 536230010203 tetramer interface [polypeptide binding]; other site 536230010204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230010205 catalytic residue [active] 536230010206 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 536230010207 tetramer interface [polypeptide binding]; other site 536230010208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230010209 catalytic residue [active] 536230010210 Alginate lyase; Region: Alginate_lyase; pfam05426 536230010211 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 536230010212 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 536230010213 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 536230010214 thiamine pyrophosphate protein; Validated; Region: PRK08199 536230010215 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536230010216 PYR/PP interface [polypeptide binding]; other site 536230010217 dimer interface [polypeptide binding]; other site 536230010218 TPP binding site [chemical binding]; other site 536230010219 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536230010220 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 536230010221 TPP-binding site [chemical binding]; other site 536230010222 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 536230010223 Helix-turn-helix domain; Region: HTH_18; pfam12833 536230010224 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 536230010225 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536230010226 NAD(P) binding site [chemical binding]; other site 536230010227 catalytic residues [active] 536230010228 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 536230010229 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 536230010230 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 536230010231 ethanolamine permease; Region: 2A0305; TIGR00908 536230010232 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 536230010233 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536230010234 Conserved TM helix; Region: TM_helix; pfam05552 536230010235 Conserved TM helix; Region: TM_helix; pfam05552 536230010236 Conserved TM helix; Region: TM_helix; pfam05552 536230010237 Double zinc ribbon; Region: DZR; pfam12773 536230010238 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 536230010239 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 536230010240 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536230010241 Soluble P-type ATPase [General function prediction only]; Region: COG4087 536230010242 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 536230010243 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 536230010244 DNA binding residues [nucleotide binding] 536230010245 dimer interface [polypeptide binding]; other site 536230010246 putative metal binding site [ion binding]; other site 536230010247 Predicted transcriptional regulators [Transcription]; Region: COG1695 536230010248 Transcriptional regulator PadR-like family; Region: PadR; cl17335 536230010249 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 536230010250 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 536230010251 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230010252 substrate binding pocket [chemical binding]; other site 536230010253 membrane-bound complex binding site; other site 536230010254 hinge residues; other site 536230010255 putative aminotransferase; Provisional; Region: PRK12414 536230010256 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 536230010257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536230010258 homodimer interface [polypeptide binding]; other site 536230010259 catalytic residue [active] 536230010260 transcription termination factor Rho; Provisional; Region: PRK12678 536230010261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536230010262 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536230010263 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 536230010264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230010265 active site 536230010266 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 536230010267 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230010268 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 536230010269 acyl-activating enzyme (AAE) consensus motif; other site 536230010270 acyl-activating enzyme (AAE) consensus motif; other site 536230010271 putative AMP binding site [chemical binding]; other site 536230010272 putative active site [active] 536230010273 putative CoA binding site [chemical binding]; other site 536230010274 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230010275 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 536230010276 dimerization interface [polypeptide binding]; other site 536230010277 ligand binding site [chemical binding]; other site 536230010278 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 536230010279 Predicted transcriptional regulator [Transcription]; Region: COG3905 536230010280 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 536230010281 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 536230010282 Glutamate binding site [chemical binding]; other site 536230010283 NAD binding site [chemical binding]; other site 536230010284 catalytic residues [active] 536230010285 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230010286 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 536230010287 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 536230010288 ATP binding site [chemical binding]; other site 536230010289 putative Mg++ binding site [ion binding]; other site 536230010290 nucleotide binding region [chemical binding]; other site 536230010291 helicase superfamily c-terminal domain; Region: HELICc; smart00490 536230010292 ATP-binding site [chemical binding]; other site 536230010293 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 536230010294 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 536230010295 substrate binding site [chemical binding]; other site 536230010296 active site 536230010297 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230010298 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 536230010299 substrate binding pocket [chemical binding]; other site 536230010300 membrane-bound complex binding site; other site 536230010301 hinge residues; other site 536230010302 CoA binding domain; Region: CoA_binding; cl17356 536230010303 AMP-binding domain protein; Validated; Region: PRK08315 536230010304 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 536230010305 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 536230010306 acyl-activating enzyme (AAE) consensus motif; other site 536230010307 putative AMP binding site [chemical binding]; other site 536230010308 putative active site [active] 536230010309 putative CoA binding site [chemical binding]; other site 536230010310 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 536230010311 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 536230010312 gamma subunit interface [polypeptide binding]; other site 536230010313 epsilon subunit interface [polypeptide binding]; other site 536230010314 LBP interface [polypeptide binding]; other site 536230010315 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 536230010316 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536230010317 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 536230010318 alpha subunit interaction interface [polypeptide binding]; other site 536230010319 Walker A motif; other site 536230010320 ATP binding site [chemical binding]; other site 536230010321 Walker B motif; other site 536230010322 inhibitor binding site; inhibition site 536230010323 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536230010324 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 536230010325 core domain interface [polypeptide binding]; other site 536230010326 delta subunit interface [polypeptide binding]; other site 536230010327 epsilon subunit interface [polypeptide binding]; other site 536230010328 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 536230010329 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536230010330 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 536230010331 beta subunit interaction interface [polypeptide binding]; other site 536230010332 Walker A motif; other site 536230010333 ATP binding site [chemical binding]; other site 536230010334 Walker B motif; other site 536230010335 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536230010336 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 536230010337 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 536230010338 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 536230010339 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 536230010340 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 536230010341 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 536230010342 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 536230010343 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; cl17221 536230010344 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 536230010345 transmembrane helices; other site 536230010346 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 536230010347 ParB-like nuclease domain; Region: ParBc; pfam02195 536230010348 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 536230010349 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 536230010350 P-loop; other site 536230010351 Magnesium ion binding site [ion binding]; other site 536230010352 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 536230010353 Magnesium ion binding site [ion binding]; other site 536230010354 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 536230010355 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 536230010356 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 536230010357 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 536230010358 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 536230010359 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 536230010360 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230010361 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536230010362 Walker A/P-loop; other site 536230010363 ATP binding site [chemical binding]; other site 536230010364 Q-loop/lid; other site 536230010365 ABC transporter signature motif; other site 536230010366 Walker B; other site 536230010367 D-loop; other site 536230010368 H-loop/switch region; other site 536230010369 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 536230010370 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 536230010371 TM-ABC transporter signature motif; other site 536230010372 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230010373 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 536230010374 Walker A/P-loop; other site 536230010375 ATP binding site [chemical binding]; other site 536230010376 Q-loop/lid; other site 536230010377 ABC transporter signature motif; other site 536230010378 Walker B; other site 536230010379 D-loop; other site 536230010380 H-loop/switch region; other site 536230010381 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 536230010382 TM-ABC transporter signature motif; other site 536230010383 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536230010384 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 536230010385 putative ligand binding site [chemical binding]; other site 536230010386 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536230010387 potential frameshift: common BLAST hit: gi|126454800|ref|YP_001068281.1| putative amino acid uptake ABC transporter, permease protein 536230010388 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 536230010389 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 536230010390 TM-ABC transporter signature motif; other site 536230010391 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 536230010392 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230010393 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 536230010394 TM-ABC transporter signature motif; other site 536230010395 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 536230010396 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 536230010397 putative ligand binding site [chemical binding]; other site 536230010398 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230010399 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536230010400 Walker A/P-loop; other site 536230010401 ATP binding site [chemical binding]; other site 536230010402 Q-loop/lid; other site 536230010403 ABC transporter signature motif; other site 536230010404 Walker B; other site 536230010405 D-loop; other site 536230010406 H-loop/switch region; other site 536230010407 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230010408 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 536230010409 Walker A/P-loop; other site 536230010410 ATP binding site [chemical binding]; other site 536230010411 Q-loop/lid; other site 536230010412 ABC transporter signature motif; other site 536230010413 Walker B; other site 536230010414 D-loop; other site 536230010415 H-loop/switch region; other site 536230010416 choline dehydrogenase; Validated; Region: PRK02106 536230010417 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230010418 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 536230010419 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 536230010420 tetrameric interface [polypeptide binding]; other site 536230010421 NAD binding site [chemical binding]; other site 536230010422 catalytic residues [active] 536230010423 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230010424 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230010425 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 536230010426 dimerization interface [polypeptide binding]; other site 536230010427 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 536230010428 putative active site [active] 536230010429 putative metal binding residues [ion binding]; other site 536230010430 signature motif; other site 536230010431 putative triphosphate binding site [ion binding]; other site 536230010432 dimer interface [polypeptide binding]; other site 536230010433 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536230010434 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 536230010435 putative DNA binding site [nucleotide binding]; other site 536230010436 putative Zn2+ binding site [ion binding]; other site 536230010437 AsnC family; Region: AsnC_trans_reg; pfam01037 536230010438 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 536230010439 cofactor binding site; other site 536230010440 metal binding site [ion binding]; metal-binding site 536230010441 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 536230010442 aromatic arch; other site 536230010443 DCoH dimer interaction site [polypeptide binding]; other site 536230010444 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 536230010445 DCoH tetramer interaction site [polypeptide binding]; other site 536230010446 substrate binding site [chemical binding]; other site 536230010447 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 536230010448 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 536230010449 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 536230010450 active site 536230010451 phosphorylation site [posttranslational modification] 536230010452 intermolecular recognition site; other site 536230010453 dimerization interface [polypeptide binding]; other site 536230010454 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230010455 DNA binding site [nucleotide binding] 536230010456 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 536230010457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230010458 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230010459 dimer interface [polypeptide binding]; other site 536230010460 phosphorylation site [posttranslational modification] 536230010461 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 536230010462 ATP binding site [chemical binding]; other site 536230010463 Mg2+ binding site [ion binding]; other site 536230010464 G-X-G motif; other site 536230010465 Proteins containing SET domain [General function prediction only]; Region: COG2940 536230010466 SET domain; Region: SET; pfam00856 536230010467 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 536230010468 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 536230010469 active site 536230010470 FMN binding site [chemical binding]; other site 536230010471 substrate binding site [chemical binding]; other site 536230010472 homotetramer interface [polypeptide binding]; other site 536230010473 catalytic residue [active] 536230010474 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 536230010475 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 536230010476 catalytic triad [active] 536230010477 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536230010478 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 536230010479 putative DNA binding site [nucleotide binding]; other site 536230010480 putative Zn2+ binding site [ion binding]; other site 536230010481 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 536230010482 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 536230010483 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 536230010484 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 536230010485 Uncharacterized conserved protein [Function unknown]; Region: COG4121 536230010486 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536230010487 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 536230010488 IHF dimer interface [polypeptide binding]; other site 536230010489 IHF - DNA interface [nucleotide binding]; other site 536230010490 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 536230010491 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 536230010492 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 536230010493 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 536230010494 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536230010495 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536230010496 catalytic residue [active] 536230010497 type II secretion system protein D; Region: type_II_gspD; TIGR02517 536230010498 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230010499 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230010500 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536230010501 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 536230010502 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 536230010503 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 536230010504 type II secretion system protein E; Region: type_II_gspE; TIGR02533 536230010505 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 536230010506 Walker A motif; other site 536230010507 ATP binding site [chemical binding]; other site 536230010508 Walker B motif; other site 536230010509 type II secretion system protein F; Region: GspF; TIGR02120 536230010510 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230010511 Ceramidase; Region: Ceramidase; pfam05875 536230010512 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536230010513 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 536230010514 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 536230010515 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 536230010516 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 536230010517 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 536230010518 Type II transport protein GspH; Region: GspH; pfam12019 536230010519 type II secretion system protein I; Region: gspI; TIGR01707 536230010520 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 536230010521 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 536230010522 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 536230010523 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 536230010524 GspL periplasmic domain; Region: GspL_C; pfam12693 536230010525 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 536230010526 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 536230010527 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 536230010528 MarR family; Region: MarR_2; cl17246 536230010529 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536230010530 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536230010531 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 536230010532 putative substrate translocation pore; other site 536230010533 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 536230010534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536230010535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536230010536 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 536230010537 putative dimerization interface [polypeptide binding]; other site 536230010538 LrgA family; Region: LrgA; pfam03788 536230010539 LrgB-like family; Region: LrgB; cl00596 536230010540 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 536230010541 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 536230010542 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 536230010543 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 536230010544 flagellar motor switch protein; Validated; Region: fliN; PRK05698 536230010545 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 536230010546 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 536230010547 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 536230010548 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 536230010549 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 536230010550 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 536230010551 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 536230010552 DNA binding residues [nucleotide binding] 536230010553 putative dimer interface [polypeptide binding]; other site 536230010554 putative metal binding residues [ion binding]; other site 536230010555 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536230010556 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 536230010557 S-adenosylmethionine binding site [chemical binding]; other site 536230010558 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 536230010559 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 536230010560 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 536230010561 membrane-bound complex binding site; other site 536230010562 hinge residues; other site 536230010563 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 536230010564 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536230010565 Walker A/P-loop; other site 536230010566 ATP binding site [chemical binding]; other site 536230010567 Q-loop/lid; other site 536230010568 ABC transporter signature motif; other site 536230010569 Walker B; other site 536230010570 D-loop; other site 536230010571 H-loop/switch region; other site 536230010572 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536230010573 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 536230010574 dimer interface [polypeptide binding]; other site 536230010575 conserved gate region; other site 536230010576 putative PBP binding loops; other site 536230010577 ABC-ATPase subunit interface; other site 536230010578 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 536230010579 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536230010580 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 536230010581 dimer interface [polypeptide binding]; other site 536230010582 phosphorylation site [posttranslational modification] 536230010583 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 536230010584 ATP binding site [chemical binding]; other site 536230010585 Mg2+ binding site [ion binding]; other site 536230010586 G-X-G motif; other site 536230010587 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 536230010588 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 536230010589 active site 536230010590 phosphorylation site [posttranslational modification] 536230010591 intermolecular recognition site; other site 536230010592 dimerization interface [polypeptide binding]; other site 536230010593 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 536230010594 DNA binding site [nucleotide binding] 536230010595 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230010596 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230010597 trimer interface [polypeptide binding]; other site 536230010598 eyelet of channel; other site 536230010599 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 536230010600 DNA methylase; Region: N6_N4_Mtase; pfam01555 536230010601 DNA methylase; Region: N6_N4_Mtase; cl17433 536230010602 Restriction endonuclease [Defense mechanisms]; Region: COG3587 536230010603 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 536230010604 ATP binding site [chemical binding]; other site 536230010605 putative Mg++ binding site [ion binding]; other site 536230010606 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536230010607 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536230010608 trimer interface [polypeptide binding]; other site 536230010609 eyelet of channel; other site 536230010610 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536230010611 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536230010612 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 536230010613 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536230010614 Walker A/P-loop; other site 536230010615 ATP binding site [chemical binding]; other site 536230010616 Q-loop/lid; other site 536230010617 ABC transporter signature motif; other site 536230010618 Walker B; other site 536230010619 D-loop; other site 536230010620 H-loop/switch region; other site 536230010621 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 536230010622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536230010623 Walker A/P-loop; other site 536230010624 ATP binding site [chemical binding]; other site 536230010625 Q-loop/lid; other site 536230010626 ABC transporter signature motif; other site 536230010627 Walker B; other site 536230010628 D-loop; other site 536230010629 H-loop/switch region; other site 536230010630 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 536230010631 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 536230010632 TM-ABC transporter signature motif; other site 536230010633 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 536230010634 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536230010635 TM-ABC transporter signature motif; other site 536230010636 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 536230010637 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 536230010638 putative ligand binding site [chemical binding]; other site 536230010639 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 536230010640 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536230010641 NAD(P) binding site [chemical binding]; other site 536230010642 catalytic residues [active] 536230010643 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 536230010644 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 536230010645 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 536230010646 classical (c) SDRs; Region: SDR_c; cd05233 536230010647 NAD(P) binding site [chemical binding]; other site 536230010648 active site 536230010649 choline dehydrogenase; Validated; Region: PRK02106 536230010650 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 536230010651 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536230010652 Predicted transcriptional regulators [Transcription]; Region: COG1695 536230010653 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 536230010654 Predicted membrane protein [Function unknown]; Region: COG4709 536230010655 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 536230010656 Fatty acid desaturase; Region: FA_desaturase; pfam00487 536230010657 putative di-iron ligands [ion binding]; other site 536230010658 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 536230010659 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 536230010660 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 536230010661 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 536230010662 conserved cys residue [active] 536230010663 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 536230010664 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536230010665 active site 536230010666 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 536230010667 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 536230010668 dimer interface [polypeptide binding]; other site 536230010669 active site 536230010670 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 536230010671 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 536230010672 substrate binding site [chemical binding]; other site 536230010673 oxyanion hole (OAH) forming residues; other site 536230010674 trimer interface [polypeptide binding]; other site 536230010675 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536230010676 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536230010677 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 536230010678 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536230010679 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 536230010680 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 536230010681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536230010682 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 536230010683 DNA binding residues [nucleotide binding] 536230010684 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 536230010685 putative heme binding pocket [chemical binding]; other site 536230010686 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 536230010687 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 536230010688 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 536230010689 ATP binding site [chemical binding]; other site 536230010690 Mg2+ binding site [ion binding]; other site 536230010691 G-X-G motif; other site 536230010692 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 536230010693 anchoring element; other site 536230010694 dimer interface [polypeptide binding]; other site 536230010695 ATP binding site [chemical binding]; other site 536230010696 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 536230010697 active site 536230010698 putative metal-binding site [ion binding]; other site 536230010699 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536230010700 DNA polymerase III subunit beta; Validated; Region: PRK05643 536230010701 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 536230010702 putative DNA binding surface [nucleotide binding]; other site 536230010703 dimer interface [polypeptide binding]; other site 536230010704 beta-clamp/clamp loader binding surface; other site 536230010705 beta-clamp/translesion DNA polymerase binding surface; other site 536230010706 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 536230010707 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 536230010708 Walker A motif; other site 536230010709 ATP binding site [chemical binding]; other site 536230010710 Walker B motif; other site 536230010711 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 536230010712 arginine finger; other site 536230010713 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 536230010714 DnaA box-binding interface [nucleotide binding]; other site