-- dump date 20140620_071826 -- class Genbank::misc_feature -- table misc_feature_note -- id note 627192000001 Initiator Replication protein; Region: Rep_3; pfam01051 627192000002 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 627192000003 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 627192000004 DNA binding residues [nucleotide binding] 627192000005 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 627192000006 P-loop; other site 627192000007 Magnesium ion binding site [ion binding]; other site 627192000008 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 627192000009 Magnesium ion binding site [ion binding]; other site 627192000010 ParB-like nuclease domain; Region: ParBc; pfam02195 627192000011 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 627192000012 RES domain; Region: RES; smart00953 627192000013 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 627192000014 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 627192000015 active site 627192000016 DNA binding site [nucleotide binding] 627192000017 Int/Topo IB signature motif; other site 627192000018 Transposase; Region: HTH_Tnp_1; pfam01527 627192000019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 627192000020 HTH-like domain; Region: HTH_21; pfam13276 627192000021 Integrase core domain; Region: rve; pfam00665 627192000022 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 627192000023 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 627192000024 mercuric reductase; Region: MerA; TIGR02053 627192000025 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192000026 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 627192000027 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 627192000028 metal-binding site [ion binding] 627192000029 MerT mercuric transport protein; Region: MerT; cl03578 627192000030 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 627192000031 DNA binding residues [nucleotide binding] 627192000032 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 627192000033 dimer interface [polypeptide binding]; other site 627192000034 putative metal binding site [ion binding]; other site 627192000035 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 627192000036 multiple promoter invertase; Provisional; Region: mpi; PRK13413 627192000037 catalytic residues [active] 627192000038 catalytic nucleophile [active] 627192000039 Presynaptic Site I dimer interface [polypeptide binding]; other site 627192000040 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 627192000041 Synaptic Flat tetramer interface [polypeptide binding]; other site 627192000042 Synaptic Site I dimer interface [polypeptide binding]; other site 627192000043 DNA binding site [nucleotide binding] 627192000044 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 627192000045 DNA-binding interface [nucleotide binding]; DNA binding site 627192000046 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 627192000047 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 627192000048 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 627192000049 active site 627192000050 catalytic residue [active] 627192000051 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 627192000052 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 627192000053 Predicted transporter component [General function prediction only]; Region: COG2391 627192000054 Sulphur transport; Region: Sulf_transp; pfam04143 627192000055 Predicted transporter component [General function prediction only]; Region: COG2391 627192000056 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 627192000057 FtsI repressor; Provisional; Region: PRK10883 627192000058 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 627192000059 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 627192000060 DsrE/DsrF-like family; Region: DrsE; pfam02635 627192000061 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 627192000062 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 627192000063 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 627192000064 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 627192000065 AAA domain; Region: AAA_22; pfam13401 627192000066 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 627192000067 Helix-turn-helix domain; Region: HTH_28; pfam13518 627192000068 Winged helix-turn helix; Region: HTH_29; pfam13551 627192000069 Homeodomain-like domain; Region: HTH_32; pfam13565 627192000070 Integrase core domain; Region: rve; pfam00665 627192000071 Integrase core domain; Region: rve_3; cl15866 627192000072 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 627192000073 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 627192000074 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 627192000075 catalytic residues [active] 627192000076 catalytic nucleophile [active] 627192000077 Presynaptic Site I dimer interface [polypeptide binding]; other site 627192000078 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 627192000079 Synaptic Flat tetramer interface [polypeptide binding]; other site 627192000080 Synaptic Site I dimer interface [polypeptide binding]; other site 627192000081 DNA binding site [nucleotide binding] 627192000082 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 627192000083 DNA-binding interface [nucleotide binding]; DNA binding site 627192000084 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 627192000085 catalytic motif [active] 627192000086 Catalytic residue [active] 627192000087 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 627192000088 protein binding site [polypeptide binding]; other site 627192000089 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 627192000090 DNA binding residues [nucleotide binding] 627192000091 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 627192000092 dimer interface [polypeptide binding]; other site 627192000093 putative metal binding site [ion binding]; other site 627192000094 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 627192000095 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192000096 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 627192000097 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 627192000098 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 627192000099 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192000100 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 627192000101 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 627192000102 putative hydrophobic ligand binding site [chemical binding]; other site 627192000103 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 627192000104 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 627192000105 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 627192000106 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 627192000107 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 627192000108 Eukaryotic phosphomannomutase; Region: PMM; cl17107 627192000109 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 627192000110 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 627192000111 multiple promoter invertase; Provisional; Region: mpi; PRK13413 627192000112 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 627192000113 catalytic residues [active] 627192000114 catalytic nucleophile [active] 627192000115 Presynaptic Site I dimer interface [polypeptide binding]; other site 627192000116 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 627192000117 Synaptic Flat tetramer interface [polypeptide binding]; other site 627192000118 Synaptic Site I dimer interface [polypeptide binding]; other site 627192000119 DNA binding site [nucleotide binding] 627192000120 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 627192000121 DNA-binding interface [nucleotide binding]; DNA binding site 627192000122 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192000123 Coenzyme A binding pocket [chemical binding]; other site 627192000124 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 627192000125 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 627192000126 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 627192000127 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192000128 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 627192000129 Outer membrane efflux protein; Region: OEP; pfam02321 627192000130 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 627192000131 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 627192000132 DNA binding residues [nucleotide binding] 627192000133 dimer interface [polypeptide binding]; other site 627192000134 metal binding site [ion binding]; metal-binding site 627192000135 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 627192000136 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 627192000137 FAD binding pocket [chemical binding]; other site 627192000138 FAD binding motif [chemical binding]; other site 627192000139 phosphate binding motif [ion binding]; other site 627192000140 beta-alpha-beta structure motif; other site 627192000141 NAD binding pocket [chemical binding]; other site 627192000142 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 627192000143 catalytic loop [active] 627192000144 iron binding site [ion binding]; other site 627192000145 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 627192000146 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 627192000147 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 627192000148 dimerization interface [polypeptide binding]; other site 627192000149 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 627192000150 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192000151 NAD(P) binding site [chemical binding]; other site 627192000152 catalytic residues [active] 627192000153 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 627192000154 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 627192000155 NAD binding site [chemical binding]; other site 627192000156 substrate binding site [chemical binding]; other site 627192000157 catalytic Zn binding site [ion binding]; other site 627192000158 tetramer interface [polypeptide binding]; other site 627192000159 structural Zn binding site [ion binding]; other site 627192000160 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 627192000161 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 627192000162 Multicopper oxidase; Region: Cu-oxidase; pfam00394 627192000163 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 627192000164 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 627192000165 Protein of unknown function, DUF; Region: DUF411; cl01142 627192000166 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 627192000167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 627192000168 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 627192000169 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 627192000170 oligomer interface [polypeptide binding]; other site 627192000171 Response regulator receiver domain; Region: Response_reg; pfam00072 627192000172 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 627192000173 active site 627192000174 phosphorylation site [posttranslational modification] 627192000175 intermolecular recognition site; other site 627192000176 dimerization interface [polypeptide binding]; other site 627192000177 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 627192000178 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 627192000179 active site 627192000180 phosphorylation site [posttranslational modification] 627192000181 intermolecular recognition site; other site 627192000182 dimerization interface [polypeptide binding]; other site 627192000183 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 627192000184 DNA binding residues [nucleotide binding] 627192000185 dimerization interface [polypeptide binding]; other site 627192000186 PAS domain; Region: PAS_9; pfam13426 627192000187 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 627192000188 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 627192000189 putative active site [active] 627192000190 heme pocket [chemical binding]; other site 627192000191 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 627192000192 dimer interface [polypeptide binding]; other site 627192000193 phosphorylation site [posttranslational modification] 627192000194 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 627192000195 ATP binding site [chemical binding]; other site 627192000196 Mg2+ binding site [ion binding]; other site 627192000197 G-X-G motif; other site 627192000198 Domain of unknown function (DUF305); Region: DUF305; cl17794 627192000199 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 627192000200 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 627192000201 Multicopper oxidase; Region: Cu-oxidase; pfam00394 627192000202 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 627192000203 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 627192000204 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192000205 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 627192000206 DNA binding residues [nucleotide binding] 627192000207 Heavy-metal resistance; Region: Metal_resist; pfam13801 627192000208 dimer interface [polypeptide binding]; other site 627192000209 CopC domain; Region: CopC; pfam04234 627192000210 Copper resistance protein D; Region: CopD; pfam05425 627192000211 YHS domain; Region: YHS; pfam04945 627192000212 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 627192000213 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 627192000214 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 627192000215 active site 627192000216 motif I; other site 627192000217 motif II; other site 627192000218 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 627192000219 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 627192000220 DNA binding residues [nucleotide binding] 627192000221 dimer interface [polypeptide binding]; other site 627192000222 copper binding site [ion binding]; other site 627192000223 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 627192000224 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 627192000225 active site 627192000226 phosphorylation site [posttranslational modification] 627192000227 intermolecular recognition site; other site 627192000228 dimerization interface [polypeptide binding]; other site 627192000229 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 627192000230 DNA binding residues [nucleotide binding] 627192000231 dimerization interface [polypeptide binding]; other site 627192000232 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 627192000233 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 627192000234 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 627192000235 active site 627192000236 thymidine phosphorylase; Provisional; Region: PRK04350 627192000237 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 627192000238 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 627192000239 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 627192000240 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 627192000241 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192000242 Beta-Casp domain; Region: Beta-Casp; smart01027 627192000243 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 627192000244 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 627192000245 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 627192000246 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 627192000247 Autoinducer binding domain; Region: Autoind_bind; pfam03472 627192000248 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 627192000249 DNA binding residues [nucleotide binding] 627192000250 dimerization interface [polypeptide binding]; other site 627192000251 transcriptional regulator TraR; Provisional; Region: PRK13870 627192000252 Autoinducer binding domain; Region: Autoind_bind; pfam03472 627192000253 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 627192000254 DNA binding residues [nucleotide binding] 627192000255 dimerization interface [polypeptide binding]; other site 627192000256 Autoinducer synthetase; Region: Autoind_synth; cl17404 627192000257 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 627192000258 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 627192000259 N-acetyl-D-glucosamine binding site [chemical binding]; other site 627192000260 catalytic residue [active] 627192000261 TrbC/VIRB2 family; Region: TrbC; pfam04956 627192000262 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 627192000263 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 627192000264 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 627192000265 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 627192000266 Type IV secretion system proteins; Region: T4SS; pfam07996 627192000267 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 627192000268 VirB8 protein; Region: VirB8; cl01500 627192000269 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 627192000270 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 627192000271 VirB7 interaction site; other site 627192000272 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 627192000273 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 627192000274 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 627192000275 Walker A motif; other site 627192000276 hexamer interface [polypeptide binding]; other site 627192000277 ATP binding site [chemical binding]; other site 627192000278 Walker B motif; other site 627192000279 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 627192000280 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 627192000281 Walker A motif; other site 627192000282 ATP binding site [chemical binding]; other site 627192000283 Walker B motif; other site 627192000284 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 627192000285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 627192000286 Transposase; Region: HTH_Tnp_1; pfam01527 627192000287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 627192000288 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 627192000289 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 627192000290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 627192000291 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 627192000292 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 627192000293 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 627192000294 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 627192000295 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 627192000296 active site 627192000297 metal binding site [ion binding]; metal-binding site 627192000298 DNA binding site [nucleotide binding] 627192000299 AAA domain; Region: AAA_27; pfam13514 627192000300 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 627192000301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192000302 Walker A/P-loop; other site 627192000303 ATP binding site [chemical binding]; other site 627192000304 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 627192000305 putative active site [active] 627192000306 putative metal-binding site [ion binding]; other site 627192000307 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 627192000308 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 627192000309 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 627192000310 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 627192000311 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 627192000312 ParB-like nuclease domain; Region: ParB; smart00470 627192000313 KorB domain; Region: KorB; pfam08535 627192000314 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 627192000315 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 627192000316 P-loop; other site 627192000317 Magnesium ion binding site [ion binding]; other site 627192000318 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 627192000319 Magnesium ion binding site [ion binding]; other site 627192000320 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 627192000321 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 627192000322 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 627192000323 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 627192000324 dimer interface [polypeptide binding]; other site 627192000325 ssDNA binding site [nucleotide binding]; other site 627192000326 tetramer (dimer of dimers) interface [polypeptide binding]; other site 627192000327 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 627192000328 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 627192000329 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 627192000330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192000331 Coenzyme A binding pocket [chemical binding]; other site 627192000332 Sodium Bile acid symporter family; Region: SBF; cl17470 627192000333 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 627192000334 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 627192000335 ArsC family; Region: ArsC; pfam03960 627192000336 catalytic residues [active] 627192000337 Low molecular weight phosphatase family; Region: LMWPc; cd00115 627192000338 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 627192000339 active site 627192000340 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 627192000341 putative DNA binding site [nucleotide binding]; other site 627192000342 putative Zn2+ binding site [ion binding]; other site 627192000343 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 627192000344 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 627192000345 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 627192000346 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 627192000347 Helicase_C-like; Region: Helicase_C_4; pfam13871 627192000348 Toprim domain; Region: Toprim_3; pfam13362 627192000349 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 627192000350 dimer interface [polypeptide binding]; other site 627192000351 ssDNA binding site [nucleotide binding]; other site 627192000352 tetramer (dimer of dimers) interface [polypeptide binding]; other site 627192000353 PEP synthetase regulatory protein; Provisional; Region: PRK05339 627192000354 Maf-like protein; Provisional; Region: PRK14361 627192000355 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 627192000356 active site 627192000357 dimer interface [polypeptide binding]; other site 627192000358 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 627192000359 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 627192000360 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 627192000361 shikimate binding site; other site 627192000362 NAD(P) binding site [chemical binding]; other site 627192000363 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 627192000364 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 627192000365 CoA-binding site [chemical binding]; other site 627192000366 ATP-binding [chemical binding]; other site 627192000367 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 627192000368 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 627192000369 active site 627192000370 catalytic site [active] 627192000371 substrate binding site [chemical binding]; other site 627192000372 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 627192000373 30S subunit binding site; other site 627192000374 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 627192000375 active site 627192000376 phosphorylation site [posttranslational modification] 627192000377 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 627192000378 CoenzymeA binding site [chemical binding]; other site 627192000379 subunit interaction site [polypeptide binding]; other site 627192000380 PHB binding site; other site 627192000381 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 627192000382 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 627192000383 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 627192000384 acetyl-CoA synthetase; Provisional; Region: PRK00174 627192000385 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 627192000386 active site 627192000387 CoA binding site [chemical binding]; other site 627192000388 acyl-activating enzyme (AAE) consensus motif; other site 627192000389 AMP binding site [chemical binding]; other site 627192000390 acetate binding site [chemical binding]; other site 627192000391 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 627192000392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 627192000393 hydroxyglutarate oxidase; Provisional; Region: PRK11728 627192000394 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 627192000395 active site 627192000396 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 627192000397 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 627192000398 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 627192000399 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 627192000400 active site 627192000401 phosphorylation site [posttranslational modification] 627192000402 intermolecular recognition site; other site 627192000403 dimerization interface [polypeptide binding]; other site 627192000404 PAS fold; Region: PAS_4; pfam08448 627192000405 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 627192000406 putative active site [active] 627192000407 heme pocket [chemical binding]; other site 627192000408 PAS fold; Region: PAS_4; pfam08448 627192000409 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192000410 HWE histidine kinase; Region: HWE_HK; pfam07536 627192000411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 627192000412 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 627192000413 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 627192000414 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 627192000415 YceI-like domain; Region: YceI; smart00867 627192000416 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 627192000417 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 627192000418 Walker A motif; other site 627192000419 ATP binding site [chemical binding]; other site 627192000420 Walker B motif; other site 627192000421 arginine finger; other site 627192000422 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 627192000423 DsrE/DsrF-like family; Region: DrsE; pfam02635 627192000424 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 627192000425 RuvA N terminal domain; Region: RuvA_N; pfam01330 627192000426 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 627192000427 Ribonuclease P; Region: Ribonuclease_P; pfam00825 627192000428 Haemolytic domain; Region: Haemolytic; pfam01809 627192000429 membrane protein insertase; Provisional; Region: PRK01318 627192000430 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 627192000431 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 627192000432 G1 box; other site 627192000433 GTP/Mg2+ binding site [chemical binding]; other site 627192000434 Switch I region; other site 627192000435 G2 box; other site 627192000436 G3 box; other site 627192000437 Switch II region; other site 627192000438 G4 box; other site 627192000439 G5 box; other site 627192000440 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 627192000441 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192000442 putative C-terminal domain interface [polypeptide binding]; other site 627192000443 putative GSH binding site (G-site) [chemical binding]; other site 627192000444 putative dimer interface [polypeptide binding]; other site 627192000445 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 627192000446 putative N-terminal domain interface [polypeptide binding]; other site 627192000447 putative dimer interface [polypeptide binding]; other site 627192000448 putative substrate binding pocket (H-site) [chemical binding]; other site 627192000449 Cupin domain; Region: Cupin_2; cl17218 627192000450 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 627192000451 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 627192000452 metal binding site [ion binding]; metal-binding site 627192000453 dimer interface [polypeptide binding]; other site 627192000454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 627192000455 Smr domain; Region: Smr; pfam01713 627192000456 MltA specific insert domain; Region: MltA; smart00925 627192000457 3D domain; Region: 3D; pfam06725 627192000458 Tim44-like domain; Region: Tim44; pfam04280 627192000459 Preprotein translocase subunit SecB; Region: SecB; pfam02556 627192000460 SecA binding site; other site 627192000461 Preprotein binding site; other site 627192000462 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 627192000463 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 627192000464 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 627192000465 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 627192000466 active site 627192000467 HIGH motif; other site 627192000468 dimer interface [polypeptide binding]; other site 627192000469 KMSKS motif; other site 627192000470 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 627192000471 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 627192000472 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 627192000473 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 627192000474 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 627192000475 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 627192000476 UGMP family protein; Validated; Region: PRK09604 627192000477 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 627192000478 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 627192000479 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 627192000480 domain interfaces; other site 627192000481 active site 627192000482 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 627192000483 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 627192000484 active site 627192000485 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 627192000486 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 627192000487 active site 627192000488 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 627192000489 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 627192000490 DNA binding site [nucleotide binding] 627192000491 catalytic residue [active] 627192000492 H2TH interface [polypeptide binding]; other site 627192000493 putative catalytic residues [active] 627192000494 turnover-facilitating residue; other site 627192000495 intercalation triad [nucleotide binding]; other site 627192000496 8OG recognition residue [nucleotide binding]; other site 627192000497 putative reading head residues; other site 627192000498 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 627192000499 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 627192000500 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 627192000501 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 627192000502 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 627192000503 active site 627192000504 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 627192000505 PAS fold; Region: PAS_3; pfam08447 627192000506 putative active site [active] 627192000507 heme pocket [chemical binding]; other site 627192000508 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 627192000509 transmembrane helices; other site 627192000510 TrkA-C domain; Region: TrkA_C; pfam02080 627192000511 TrkA-C domain; Region: TrkA_C; pfam02080 627192000512 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 627192000513 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 627192000514 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 627192000515 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192000516 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 627192000517 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 627192000518 active site 627192000519 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 627192000520 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 627192000521 active site 627192000522 dimer interface [polypeptide binding]; other site 627192000523 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 627192000524 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 627192000525 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 627192000526 catalytic loop [active] 627192000527 iron binding site [ion binding]; other site 627192000528 Predicted ATPase [General function prediction only]; Region: COG1485 627192000529 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 627192000530 Ligand binding site; other site 627192000531 Putative Catalytic site; other site 627192000532 DXD motif; other site 627192000533 Predicted membrane protein [Function unknown]; Region: COG2246 627192000534 GtrA-like protein; Region: GtrA; pfam04138 627192000535 malate dehydrogenase; Reviewed; Region: PRK06223 627192000536 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 627192000537 NAD(P) binding site [chemical binding]; other site 627192000538 dimer interface [polypeptide binding]; other site 627192000539 tetramer (dimer of dimers) interface [polypeptide binding]; other site 627192000540 substrate binding site [chemical binding]; other site 627192000541 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 627192000542 CoA binding domain; Region: CoA_binding; smart00881 627192000543 CoA-ligase; Region: Ligase_CoA; pfam00549 627192000544 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 627192000545 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 627192000546 TPP-binding site [chemical binding]; other site 627192000547 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 627192000548 dimer interface [polypeptide binding]; other site 627192000549 PYR/PP interface [polypeptide binding]; other site 627192000550 TPP binding site [chemical binding]; other site 627192000551 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 627192000552 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 627192000553 E3 interaction surface; other site 627192000554 lipoyl attachment site [posttranslational modification]; other site 627192000555 e3 binding domain; Region: E3_binding; pfam02817 627192000556 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 627192000557 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 627192000558 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 627192000559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192000560 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 627192000561 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 627192000562 Predicted flavoprotein [General function prediction only]; Region: COG0431 627192000563 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 627192000564 Predicted membrane protein [Function unknown]; Region: COG2860 627192000565 UPF0126 domain; Region: UPF0126; pfam03458 627192000566 UPF0126 domain; Region: UPF0126; pfam03458 627192000567 Uncharacterized conserved protein [Function unknown]; Region: COG3791 627192000568 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 627192000569 tandem repeat interface [polypeptide binding]; other site 627192000570 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 627192000571 oligomer interface [polypeptide binding]; other site 627192000572 active site residues [active] 627192000573 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 627192000574 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 627192000575 tandem repeat interface [polypeptide binding]; other site 627192000576 oligomer interface [polypeptide binding]; other site 627192000577 active site residues [active] 627192000578 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 627192000579 oligomerisation interface [polypeptide binding]; other site 627192000580 mobile loop; other site 627192000581 roof hairpin; other site 627192000582 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 627192000583 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 627192000584 ring oligomerisation interface [polypeptide binding]; other site 627192000585 ATP/Mg binding site [chemical binding]; other site 627192000586 stacking interactions; other site 627192000587 hinge regions; other site 627192000588 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 627192000589 PEP-CTERM motif; Region: VPEP; pfam07589 627192000590 EVE domain; Region: EVE; pfam01878 627192000591 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 627192000592 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 627192000593 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 627192000594 Dihydroneopterin aldolase; Region: FolB; pfam02152 627192000595 active site 627192000596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192000597 Coenzyme A binding pocket [chemical binding]; other site 627192000598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 627192000599 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 627192000600 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 627192000601 putative active site [active] 627192000602 putative CoA binding site [chemical binding]; other site 627192000603 nudix motif; other site 627192000604 metal binding site [ion binding]; metal-binding site 627192000605 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 627192000606 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 627192000607 active site 627192000608 NTP binding site [chemical binding]; other site 627192000609 metal binding triad [ion binding]; metal-binding site 627192000610 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 627192000611 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 627192000612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192000613 metal binding site [ion binding]; metal-binding site 627192000614 active site 627192000615 I-site; other site 627192000616 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 627192000617 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 627192000618 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 627192000619 CAP-like domain; other site 627192000620 active site 627192000621 primary dimer interface [polypeptide binding]; other site 627192000622 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 627192000623 dimer interface [polypeptide binding]; other site 627192000624 allosteric magnesium binding site [ion binding]; other site 627192000625 active site 627192000626 aspartate-rich active site metal binding site; other site 627192000627 Schiff base residues; other site 627192000628 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 627192000629 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 627192000630 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 627192000631 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 627192000632 trimer interface [polypeptide binding]; other site 627192000633 putative metal binding site [ion binding]; other site 627192000634 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 627192000635 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 627192000636 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 627192000637 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 627192000638 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 627192000639 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 627192000640 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 627192000641 putative substrate translocation pore; other site 627192000642 GTPase CgtA; Reviewed; Region: obgE; PRK12299 627192000643 GTP1/OBG; Region: GTP1_OBG; pfam01018 627192000644 Obg GTPase; Region: Obg; cd01898 627192000645 G1 box; other site 627192000646 GTP/Mg2+ binding site [chemical binding]; other site 627192000647 Switch I region; other site 627192000648 G2 box; other site 627192000649 G3 box; other site 627192000650 Switch II region; other site 627192000651 G4 box; other site 627192000652 G5 box; other site 627192000653 gamma-glutamyl kinase; Provisional; Region: PRK05429 627192000654 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 627192000655 nucleotide binding site [chemical binding]; other site 627192000656 homotetrameric interface [polypeptide binding]; other site 627192000657 putative phosphate binding site [ion binding]; other site 627192000658 putative allosteric binding site; other site 627192000659 PUA domain; Region: PUA; pfam01472 627192000660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192000661 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192000662 NAD(P) binding site [chemical binding]; other site 627192000663 active site 627192000664 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 627192000665 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 627192000666 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 627192000667 substrate-cofactor binding pocket; other site 627192000668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192000669 catalytic residue [active] 627192000670 CHASE3 domain; Region: CHASE3; pfam05227 627192000671 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 627192000672 dimer interface [polypeptide binding]; other site 627192000673 phosphorylation site [posttranslational modification] 627192000674 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 627192000675 ATP binding site [chemical binding]; other site 627192000676 Mg2+ binding site [ion binding]; other site 627192000677 G-X-G motif; other site 627192000678 Response regulator receiver domain; Region: Response_reg; pfam00072 627192000679 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 627192000680 active site 627192000681 phosphorylation site [posttranslational modification] 627192000682 intermolecular recognition site; other site 627192000683 dimerization interface [polypeptide binding]; other site 627192000684 Predicted permeases [General function prediction only]; Region: COG0795 627192000685 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 627192000686 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 627192000687 Predicted permeases [General function prediction only]; Region: COG0795 627192000688 Fatty acid desaturase; Region: FA_desaturase; pfam00487 627192000689 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 627192000690 type II secretion system protein F; Region: GspF; TIGR02120 627192000691 Putative phosphatase (DUF442); Region: DUF442; cl17385 627192000692 MAPEG family; Region: MAPEG; cl09190 627192000693 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 627192000694 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 627192000695 Nitrogen regulatory protein P-II; Region: P-II; smart00938 627192000696 prephenate dehydratase; Provisional; Region: PRK11899 627192000697 Prephenate dehydratase; Region: PDT; pfam00800 627192000698 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 627192000699 putative L-Phe binding site [chemical binding]; other site 627192000700 Cytochrome c2 [Energy production and conversion]; Region: COG3474 627192000701 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 627192000702 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 627192000703 phosphoserine aminotransferase; Provisional; Region: PRK03080 627192000704 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192000705 catalytic residue [active] 627192000706 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 627192000707 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 627192000708 ligand binding site [chemical binding]; other site 627192000709 NAD binding site [chemical binding]; other site 627192000710 dimerization interface [polypeptide binding]; other site 627192000711 catalytic site [active] 627192000712 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 627192000713 putative L-serine binding site [chemical binding]; other site 627192000714 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 627192000715 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 627192000716 motif 1; other site 627192000717 dimer interface [polypeptide binding]; other site 627192000718 active site 627192000719 motif 2; other site 627192000720 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 627192000721 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 627192000722 ligand binding site [chemical binding]; other site 627192000723 flexible hinge region; other site 627192000724 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 627192000725 putative switch regulator; other site 627192000726 non-specific DNA interactions [nucleotide binding]; other site 627192000727 DNA binding site [nucleotide binding] 627192000728 sequence specific DNA binding site [nucleotide binding]; other site 627192000729 putative cAMP binding site [chemical binding]; other site 627192000730 Herpesvirus VP23 like capsid protein; Region: Herpes_V23; cl17653 627192000731 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 627192000732 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 627192000733 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 627192000734 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 627192000735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 627192000736 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 627192000737 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 627192000738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 627192000739 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 627192000740 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 627192000741 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 627192000742 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 627192000743 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 627192000744 Domain of unknown function DUF20; Region: UPF0118; pfam01594 627192000745 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 627192000746 ArsC family; Region: ArsC; pfam03960 627192000747 putative catalytic residues [active] 627192000748 Uncharacterized conserved protein [Function unknown]; Region: COG3791 627192000749 Rrf2 family protein; Region: rrf2_super; TIGR00738 627192000750 Transcriptional regulator; Region: Rrf2; pfam02082 627192000751 Transcriptional regulator; Region: Rrf2; cl17282 627192000752 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 627192000753 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 627192000754 non-specific DNA binding site [nucleotide binding]; other site 627192000755 salt bridge; other site 627192000756 sequence-specific DNA binding site [nucleotide binding]; other site 627192000757 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 627192000758 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 627192000759 Sulfate transporter family; Region: Sulfate_transp; pfam00916 627192000760 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 627192000761 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 627192000762 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 627192000763 NAD binding site [chemical binding]; other site 627192000764 ligand binding site [chemical binding]; other site 627192000765 catalytic site [active] 627192000766 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 627192000767 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192000768 active site 627192000769 HIGH motif; other site 627192000770 nucleotide binding site [chemical binding]; other site 627192000771 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192000772 active site 627192000773 KMSKS motif; other site 627192000774 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 627192000775 tRNA binding surface [nucleotide binding]; other site 627192000776 anticodon binding site; other site 627192000777 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 627192000778 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 627192000779 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 627192000780 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 627192000781 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 627192000782 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 627192000783 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 627192000784 active site 627192000785 dimer interface [polypeptide binding]; other site 627192000786 motif 1; other site 627192000787 motif 2; other site 627192000788 motif 3; other site 627192000789 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 627192000790 anticodon binding site; other site 627192000791 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 627192000792 non-specific DNA binding site [nucleotide binding]; other site 627192000793 salt bridge; other site 627192000794 sequence-specific DNA binding site [nucleotide binding]; other site 627192000795 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192000796 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 627192000797 S-adenosylmethionine binding site [chemical binding]; other site 627192000798 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 627192000799 Peptidase family M48; Region: Peptidase_M48; pfam01435 627192000800 PAS fold; Region: PAS_4; pfam08448 627192000801 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192000802 HWE histidine kinase; Region: HWE_HK; smart00911 627192000803 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192000804 TAP-like protein; Region: Abhydrolase_4; pfam08386 627192000805 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 627192000806 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 627192000807 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 627192000808 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 627192000809 acyl-activating enzyme (AAE) consensus motif; other site 627192000810 putative AMP binding site [chemical binding]; other site 627192000811 putative active site [active] 627192000812 putative CoA binding site [chemical binding]; other site 627192000813 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 627192000814 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 627192000815 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 627192000816 epoxyqueuosine reductase; Region: TIGR00276 627192000817 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 627192000818 methionine sulfoxide reductase B; Provisional; Region: PRK00222 627192000819 SelR domain; Region: SelR; pfam01641 627192000820 GtrA-like protein; Region: GtrA; pfam04138 627192000821 hypothetical protein; Provisional; Region: PRK07208 627192000822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 627192000823 Gram-negative bacterial tonB protein; Region: TonB; cl10048 627192000824 Peptidase family M1; Region: Peptidase_M1; pfam01433 627192000825 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 627192000826 Zn binding site [ion binding]; other site 627192000827 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 627192000828 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 627192000829 purine monophosphate binding site [chemical binding]; other site 627192000830 dimer interface [polypeptide binding]; other site 627192000831 putative catalytic residues [active] 627192000832 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 627192000833 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 627192000834 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 627192000835 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 627192000836 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 627192000837 substrate binding site [chemical binding]; other site 627192000838 hexamer interface [polypeptide binding]; other site 627192000839 metal binding site [ion binding]; metal-binding site 627192000840 16S rRNA methyltransferase B; Provisional; Region: PRK10901 627192000841 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 627192000842 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 627192000843 S-adenosylmethionine binding site [chemical binding]; other site 627192000844 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 627192000845 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 627192000846 phosphate binding site [ion binding]; other site 627192000847 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 627192000848 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 627192000849 putative active site [active] 627192000850 putative PHP Thumb interface [polypeptide binding]; other site 627192000851 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 627192000852 generic binding surface II; other site 627192000853 generic binding surface I; other site 627192000854 DNA Polymerase Y-family; Region: PolY_like; cd03468 627192000855 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 627192000856 DNA binding site [nucleotide binding] 627192000857 Uncharacterized conserved protein [Function unknown]; Region: COG4544 627192000858 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 627192000859 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 627192000860 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 627192000861 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 627192000862 dimer interface [polypeptide binding]; other site 627192000863 tetramer interface [polypeptide binding]; other site 627192000864 active site 627192000865 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 627192000866 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 627192000867 active site 627192000868 metal binding site [ion binding]; metal-binding site 627192000869 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 627192000870 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192000871 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 627192000872 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 627192000873 catalytic residues [active] 627192000874 argininosuccinate lyase; Provisional; Region: PRK00855 627192000875 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 627192000876 active sites [active] 627192000877 tetramer interface [polypeptide binding]; other site 627192000878 diaminopimelate decarboxylase; Region: lysA; TIGR01048 627192000879 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 627192000880 active site 627192000881 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 627192000882 substrate binding site [chemical binding]; other site 627192000883 catalytic residues [active] 627192000884 dimer interface [polypeptide binding]; other site 627192000885 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 627192000886 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 627192000887 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 627192000888 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192000889 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 627192000890 DNA binding site [nucleotide binding] 627192000891 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 627192000892 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 627192000893 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192000894 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192000895 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192000896 PEP-CTERM motif; Region: VPEP; pfam07589 627192000897 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 627192000898 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 627192000899 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 627192000900 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 627192000901 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 627192000902 EamA-like transporter family; Region: EamA; pfam00892 627192000903 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 627192000904 EamA-like transporter family; Region: EamA; cl17759 627192000905 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 627192000906 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 627192000907 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 627192000908 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 627192000909 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 627192000910 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 627192000911 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 627192000912 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 627192000913 putative catalytic site [active] 627192000914 putative phosphate binding site [ion binding]; other site 627192000915 active site 627192000916 metal binding site A [ion binding]; metal-binding site 627192000917 DNA binding site [nucleotide binding] 627192000918 putative AP binding site [nucleotide binding]; other site 627192000919 putative metal binding site B [ion binding]; other site 627192000920 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 627192000921 dimerization interface [polypeptide binding]; other site 627192000922 active site 627192000923 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 627192000924 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192000925 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192000926 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 627192000927 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 627192000928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192000929 Walker A/P-loop; other site 627192000930 ATP binding site [chemical binding]; other site 627192000931 Q-loop/lid; other site 627192000932 ABC transporter signature motif; other site 627192000933 Walker B; other site 627192000934 D-loop; other site 627192000935 H-loop/switch region; other site 627192000936 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 627192000937 active site 627192000938 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 627192000939 glutaminase; Provisional; Region: PRK00971 627192000940 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 627192000941 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 627192000942 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 627192000943 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 627192000944 putative substrate translocation pore; other site 627192000945 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192000946 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 627192000947 S-adenosylmethionine binding site [chemical binding]; other site 627192000948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192000949 Coenzyme A binding pocket [chemical binding]; other site 627192000950 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 627192000951 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 627192000952 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 627192000953 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 627192000954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192000955 homodimer interface [polypeptide binding]; other site 627192000956 catalytic residue [active] 627192000957 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 627192000958 prephenate dehydrogenase; Validated; Region: PRK08507 627192000959 ribonuclease R; Region: RNase_R; TIGR02063 627192000960 RNB domain; Region: RNB; pfam00773 627192000961 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 627192000962 RNA binding site [nucleotide binding]; other site 627192000963 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 627192000964 Mechanosensitive ion channel; Region: MS_channel; pfam00924 627192000965 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 627192000966 PAS domain; Region: PAS_9; pfam13426 627192000967 putative active site [active] 627192000968 heme pocket [chemical binding]; other site 627192000969 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 627192000970 putative CheW interface [polypeptide binding]; other site 627192000971 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 627192000972 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 627192000973 trimer interface [polypeptide binding]; other site 627192000974 active site 627192000975 substrate binding site [chemical binding]; other site 627192000976 CoA binding site [chemical binding]; other site 627192000977 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 627192000978 malate synthase G; Provisional; Region: PRK02999 627192000979 active site 627192000980 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192000981 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 627192000982 active site 627192000983 phosphorylation site [posttranslational modification] 627192000984 intermolecular recognition site; other site 627192000985 dimerization interface [polypeptide binding]; other site 627192000986 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 627192000987 DNA binding site [nucleotide binding] 627192000988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192000989 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 627192000990 ATP binding site [chemical binding]; other site 627192000991 Mg2+ binding site [ion binding]; other site 627192000992 G-X-G motif; other site 627192000993 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 627192000994 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 627192000995 Uncharacterized conserved protein [Function unknown]; Region: COG3743 627192000996 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 627192000997 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 627192000998 ligand binding site [chemical binding]; other site 627192000999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 627192001000 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 627192001001 dimer interface [polypeptide binding]; other site 627192001002 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192001003 active site 627192001004 metal binding site [ion binding]; metal-binding site 627192001005 glutathione binding site [chemical binding]; other site 627192001006 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 627192001007 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 627192001008 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 627192001009 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 627192001010 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 627192001011 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 627192001012 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 627192001013 generic binding surface II; other site 627192001014 generic binding surface I; other site 627192001015 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 627192001016 Peptidase family M23; Region: Peptidase_M23; pfam01551 627192001017 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192001018 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 627192001019 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192001020 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 627192001021 TPR repeat; Region: TPR_11; pfam13414 627192001022 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 627192001023 binding surface 627192001024 TPR motif; other site 627192001025 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 627192001026 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 627192001027 Clp amino terminal domain; Region: Clp_N; pfam02861 627192001028 Clp amino terminal domain; Region: Clp_N; pfam02861 627192001029 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 627192001030 Walker A motif; other site 627192001031 ATP binding site [chemical binding]; other site 627192001032 Walker B motif; other site 627192001033 arginine finger; other site 627192001034 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 627192001035 Walker A motif; other site 627192001036 ATP binding site [chemical binding]; other site 627192001037 Walker B motif; other site 627192001038 arginine finger; other site 627192001039 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 627192001040 multifunctional aminopeptidase A; Provisional; Region: PRK00913 627192001041 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 627192001042 interface (dimer of trimers) [polypeptide binding]; other site 627192001043 Substrate-binding/catalytic site; other site 627192001044 Zn-binding sites [ion binding]; other site 627192001045 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 627192001046 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 627192001047 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 627192001048 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 627192001049 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 627192001050 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 627192001051 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 627192001052 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 627192001053 ligand binding site [chemical binding]; other site 627192001054 translocation protein TolB; Provisional; Region: tolB; PRK05137 627192001055 TolB amino-terminal domain; Region: TolB_N; pfam04052 627192001056 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192001057 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192001058 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192001059 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192001060 Gram-negative bacterial tonB protein; Region: TonB; cl10048 627192001061 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 627192001062 TolR protein; Region: tolR; TIGR02801 627192001063 TolQ protein; Region: tolQ; TIGR02796 627192001064 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 627192001065 active site 627192001066 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 627192001067 binding surface 627192001068 TPR motif; other site 627192001069 Tetratricopeptide repeat; Region: TPR_12; pfam13424 627192001070 CHAT domain; Region: CHAT; pfam12770 627192001071 Stringent starvation protein B; Region: SspB; cl01120 627192001072 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 627192001073 putative active site pocket [active] 627192001074 4-fold oligomerization interface [polypeptide binding]; other site 627192001075 metal binding residues [ion binding]; metal-binding site 627192001076 3-fold/trimer interface [polypeptide binding]; other site 627192001077 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 627192001078 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 627192001079 putative active site [active] 627192001080 oxyanion strand; other site 627192001081 catalytic triad [active] 627192001082 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 627192001083 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 627192001084 catalytic residues [active] 627192001085 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 627192001086 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 627192001087 substrate binding site [chemical binding]; other site 627192001088 glutamase interaction surface [polypeptide binding]; other site 627192001089 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 627192001090 metal binding site [ion binding]; metal-binding site 627192001091 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 627192001092 nucleotide binding site/active site [active] 627192001093 HIT family signature motif; other site 627192001094 catalytic residue [active] 627192001095 amino acid transporter; Region: 2A0306; TIGR00909 627192001096 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 627192001097 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 627192001098 substrate binding site [chemical binding]; other site 627192001099 THF binding site; other site 627192001100 zinc-binding site [ion binding]; other site 627192001101 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 627192001102 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 627192001103 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 627192001104 Tetramer interface [polypeptide binding]; other site 627192001105 active site 627192001106 FMN-binding site [chemical binding]; other site 627192001107 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 627192001108 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 627192001109 NAD binding site [chemical binding]; other site 627192001110 homotetramer interface [polypeptide binding]; other site 627192001111 homodimer interface [polypeptide binding]; other site 627192001112 substrate binding site [chemical binding]; other site 627192001113 active site 627192001114 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 627192001115 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 627192001116 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 627192001117 HSP70 interaction site [polypeptide binding]; other site 627192001118 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 627192001119 substrate binding site [polypeptide binding]; other site 627192001120 dimer interface [polypeptide binding]; other site 627192001121 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 627192001122 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 627192001123 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 627192001124 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 627192001125 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 627192001126 Cation efflux family; Region: Cation_efflux; cl00316 627192001127 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 627192001128 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 627192001129 Beta-lactamase; Region: Beta-lactamase; pfam00144 627192001130 Protein of unknown function (DUF808); Region: DUF808; cl01002 627192001131 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 627192001132 ligand binding site [chemical binding]; other site 627192001133 active site 627192001134 UGI interface [polypeptide binding]; other site 627192001135 catalytic site [active] 627192001136 Flagellar protein FliS; Region: FliS; cl00654 627192001137 flagellar capping protein; Reviewed; Region: fliD; PRK08032 627192001138 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 627192001139 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 627192001140 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 627192001141 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 627192001142 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 627192001143 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 627192001144 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 627192001145 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 627192001146 flagellar motor switch protein FliN; Region: fliN; TIGR02480 627192001147 Flagellar motor switch protein FliM; Region: FliM; pfam02154 627192001148 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 627192001149 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 627192001150 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 627192001151 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 627192001152 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 627192001153 Walker A motif; other site 627192001154 ATP binding site [chemical binding]; other site 627192001155 Walker B motif; other site 627192001156 Flagellar assembly protein FliH; Region: FliH; pfam02108 627192001157 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 627192001158 FliG C-terminal domain; Region: FliG_C; pfam01706 627192001159 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 627192001160 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 627192001161 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 627192001162 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 627192001163 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 627192001164 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 627192001165 Walker A motif; other site 627192001166 ATP binding site [chemical binding]; other site 627192001167 Walker B motif; other site 627192001168 arginine finger; other site 627192001169 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 627192001170 flagellin; Provisional; Region: PRK12802 627192001171 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 627192001172 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 627192001173 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 627192001174 DnaA N-terminal domain; Region: DnaA_N; pfam11638 627192001175 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 627192001176 Walker A motif; other site 627192001177 ATP binding site [chemical binding]; other site 627192001178 Walker B motif; other site 627192001179 arginine finger; other site 627192001180 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 627192001181 DnaA box-binding interface [nucleotide binding]; other site 627192001182 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 627192001183 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 627192001184 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 627192001185 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 627192001186 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 627192001187 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 627192001188 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 627192001189 Walker A/P-loop; other site 627192001190 ATP binding site [chemical binding]; other site 627192001191 Q-loop/lid; other site 627192001192 ABC transporter signature motif; other site 627192001193 Walker B; other site 627192001194 D-loop; other site 627192001195 H-loop/switch region; other site 627192001196 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 627192001197 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 627192001198 Walker A/P-loop; other site 627192001199 ATP binding site [chemical binding]; other site 627192001200 Q-loop/lid; other site 627192001201 ABC transporter signature motif; other site 627192001202 Walker B; other site 627192001203 D-loop; other site 627192001204 H-loop/switch region; other site 627192001205 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 627192001206 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192001207 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192001208 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192001209 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 627192001210 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 627192001211 EF-hand domain pair; Region: EF_hand_5; pfam13499 627192001212 Ca2+ binding site [ion binding]; other site 627192001213 osmolarity response regulator; Provisional; Region: ompR; PRK09468 627192001214 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 627192001215 active site 627192001216 phosphorylation site [posttranslational modification] 627192001217 intermolecular recognition site; other site 627192001218 dimerization interface [polypeptide binding]; other site 627192001219 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 627192001220 DNA binding site [nucleotide binding] 627192001221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192001222 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 627192001223 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 627192001224 ATP binding site [chemical binding]; other site 627192001225 Mg2+ binding site [ion binding]; other site 627192001226 G-X-G motif; other site 627192001227 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 627192001228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192001229 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 627192001230 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 627192001231 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 627192001232 active site 627192001233 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192001234 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 627192001235 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 627192001236 putative active site [active] 627192001237 metal binding site [ion binding]; metal-binding site 627192001238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192001239 Coenzyme A binding pocket [chemical binding]; other site 627192001240 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 627192001241 Domain of unknown function DUF21; Region: DUF21; pfam01595 627192001242 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 627192001243 Transporter associated domain; Region: CorC_HlyC; smart01091 627192001244 putative outer membrane lipoprotein; Provisional; Region: PRK10510 627192001245 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 627192001246 ligand binding site [chemical binding]; other site 627192001247 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 627192001248 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 627192001249 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 627192001250 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 627192001251 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 627192001252 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 627192001253 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 627192001254 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 627192001255 DNA binding residues [nucleotide binding] 627192001256 dimer interface [polypeptide binding]; other site 627192001257 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 627192001258 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 627192001259 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 627192001260 Nucleoside recognition; Region: Gate; pfam07670 627192001261 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 627192001262 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 627192001263 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 627192001264 metal binding site [ion binding]; metal-binding site 627192001265 putative dimer interface [polypeptide binding]; other site 627192001266 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 627192001267 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 627192001268 homohexameric interface [polypeptide binding]; other site 627192001269 nucleotide binding site [chemical binding]; other site 627192001270 N-acetyl-L-glutamate binding site [chemical binding]; other site 627192001271 YGGT family; Region: YGGT; pfam02325 627192001272 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 627192001273 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 627192001274 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 627192001275 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 627192001276 homodimer interface [polypeptide binding]; other site 627192001277 NADP binding site [chemical binding]; other site 627192001278 substrate binding site [chemical binding]; other site 627192001279 MarC family integral membrane protein; Region: MarC; cl00919 627192001280 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 627192001281 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 627192001282 putative active site [active] 627192001283 Fe(II) binding site [ion binding]; other site 627192001284 putative dimer interface [polypeptide binding]; other site 627192001285 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 627192001286 putative dimer interface [polypeptide binding]; other site 627192001287 putative N- and C-terminal domain interface [polypeptide binding]; other site 627192001288 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 627192001289 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 627192001290 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 627192001291 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 627192001292 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 627192001293 putative active site [active] 627192001294 metal binding site [ion binding]; metal-binding site 627192001295 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 627192001296 Predicted membrane protein [Function unknown]; Region: COG3205 627192001297 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 627192001298 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 627192001299 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 627192001300 PhnA protein; Region: PhnA; pfam03831 627192001301 Predicted membrane protein [Function unknown]; Region: COG3650 627192001302 Fic family protein [Function unknown]; Region: COG3177 627192001303 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 627192001304 Fic/DOC family; Region: Fic; pfam02661 627192001305 Predicted transcriptional regulator [Transcription]; Region: COG3432 627192001306 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 627192001307 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 627192001308 ThiC-associated domain; Region: ThiC-associated; pfam13667 627192001309 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 627192001310 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 627192001311 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 627192001312 active site 627192001313 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 627192001314 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 627192001315 NAD binding site [chemical binding]; other site 627192001316 homodimer interface [polypeptide binding]; other site 627192001317 active site 627192001318 substrate binding site [chemical binding]; other site 627192001319 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 627192001320 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 627192001321 Substrate binding site; other site 627192001322 Cupin domain; Region: Cupin_2; cl17218 627192001323 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 627192001324 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 627192001325 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 627192001326 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 627192001327 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 627192001328 active site 627192001329 phosphorylation site [posttranslational modification] 627192001330 intermolecular recognition site; other site 627192001331 dimerization interface [polypeptide binding]; other site 627192001332 AAA domain; Region: AAA_31; pfam13614 627192001333 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 627192001334 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 627192001335 Switch II region; other site 627192001336 G4 box; other site 627192001337 G5 box; other site 627192001338 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 627192001339 Type IV pili component [Cell motility and secretion]; Region: COG5461 627192001340 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 627192001341 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 627192001342 BON domain; Region: BON; pfam04972 627192001343 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 627192001344 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 627192001345 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 627192001346 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 627192001347 FAD dependent oxidoreductase; Region: DAO; pfam01266 627192001348 hydroxyglutarate oxidase; Provisional; Region: PRK11728 627192001349 hydroxyglutarate oxidase; Provisional; Region: PRK11728 627192001350 Cytochrome c2 [Energy production and conversion]; Region: COG3474 627192001351 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192001352 MarR family; Region: MarR; pfam01047 627192001353 MarR family; Region: MarR_2; cl17246 627192001354 glycerate dehydrogenase; Provisional; Region: PRK06932 627192001355 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 627192001356 putative ligand binding site [chemical binding]; other site 627192001357 putative NAD binding site [chemical binding]; other site 627192001358 catalytic site [active] 627192001359 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 627192001360 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 627192001361 MOFRL family; Region: MOFRL; pfam05161 627192001362 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192001363 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 627192001364 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 627192001365 CHAD domain; Region: CHAD; pfam05235 627192001366 DNA polymerase I; Provisional; Region: PRK05755 627192001367 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 627192001368 active site 627192001369 metal binding site 1 [ion binding]; metal-binding site 627192001370 putative 5' ssDNA interaction site; other site 627192001371 metal binding site 3; metal-binding site 627192001372 metal binding site 2 [ion binding]; metal-binding site 627192001373 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 627192001374 putative DNA binding site [nucleotide binding]; other site 627192001375 putative metal binding site [ion binding]; other site 627192001376 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 627192001377 active site 627192001378 catalytic site [active] 627192001379 substrate binding site [chemical binding]; other site 627192001380 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 627192001381 active site 627192001382 DNA binding site [nucleotide binding] 627192001383 catalytic site [active] 627192001384 hypothetical protein; Validated; Region: PRK00110 627192001385 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 627192001386 active site 627192001387 putative DNA-binding cleft [nucleotide binding]; other site 627192001388 dimer interface [polypeptide binding]; other site 627192001389 Protein of unknown function, DUF481; Region: DUF481; pfam04338 627192001390 Protein of unknown function, DUF486; Region: DUF486; cl01236 627192001391 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192001392 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 627192001393 Fe-S metabolism associated domain; Region: SufE; cl00951 627192001394 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 627192001395 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 627192001396 Protein export membrane protein; Region: SecD_SecF; cl14618 627192001397 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 627192001398 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192001399 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192001400 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 627192001401 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 627192001402 GAF domain; Region: GAF; pfam01590 627192001403 PAS domain S-box; Region: sensory_box; TIGR00229 627192001404 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 627192001405 putative active site [active] 627192001406 heme pocket [chemical binding]; other site 627192001407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 627192001408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192001409 metal binding site [ion binding]; metal-binding site 627192001410 active site 627192001411 I-site; other site 627192001412 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 627192001413 exopolyphosphatase; Region: exo_poly_only; TIGR03706 627192001414 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 627192001415 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 627192001416 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 627192001417 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 627192001418 HSP70 interaction site [polypeptide binding]; other site 627192001419 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 627192001420 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 627192001421 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 627192001422 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 627192001423 active site 627192001424 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 627192001425 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 627192001426 Amidohydrolase; Region: Amidohydro_4; pfam13147 627192001427 active site 627192001428 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 627192001429 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 627192001430 amidase catalytic site [active] 627192001431 Zn binding residues [ion binding]; other site 627192001432 substrate binding site [chemical binding]; other site 627192001433 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 627192001434 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 627192001435 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 627192001436 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 627192001437 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 627192001438 active site 627192001439 phosphorylation site [posttranslational modification] 627192001440 intermolecular recognition site; other site 627192001441 dimerization interface [polypeptide binding]; other site 627192001442 CheB methylesterase; Region: CheB_methylest; pfam01339 627192001443 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 627192001444 Response regulator receiver domain; Region: Response_reg; pfam00072 627192001445 active site 627192001446 phosphorylation site [posttranslational modification] 627192001447 intermolecular recognition site; other site 627192001448 dimerization interface [polypeptide binding]; other site 627192001449 CheW-like domain; Region: CheW; pfam01584 627192001450 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 627192001451 putative binding surface; other site 627192001452 active site 627192001453 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 627192001454 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 627192001455 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 627192001456 ATP binding site [chemical binding]; other site 627192001457 Mg2+ binding site [ion binding]; other site 627192001458 G-X-G motif; other site 627192001459 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 627192001460 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 627192001461 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 627192001462 MPN+ (JAMM) motif; other site 627192001463 Zinc-binding site [ion binding]; other site 627192001464 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 627192001465 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 627192001466 RNA binding surface [nucleotide binding]; other site 627192001467 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 627192001468 active site 627192001469 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 627192001470 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 627192001471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192001472 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 627192001473 DNA binding residues [nucleotide binding] 627192001474 CrcB-like protein; Region: CRCB; cl09114 627192001475 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 627192001476 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 627192001477 active site 627192001478 AsmA family; Region: AsmA; pfam05170 627192001479 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 627192001480 benzoate transport; Region: 2A0115; TIGR00895 627192001481 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 627192001482 putative substrate translocation pore; other site 627192001483 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 627192001484 putative S-transferase; Provisional; Region: PRK11752 627192001485 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 627192001486 C-terminal domain interface [polypeptide binding]; other site 627192001487 GSH binding site (G-site) [chemical binding]; other site 627192001488 dimer interface [polypeptide binding]; other site 627192001489 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 627192001490 dimer interface [polypeptide binding]; other site 627192001491 N-terminal domain interface [polypeptide binding]; other site 627192001492 active site 627192001493 Uncharacterized conserved protein [Function unknown]; Region: COG2968 627192001494 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 627192001495 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 627192001496 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 627192001497 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 627192001498 putative acyl-acceptor binding pocket; other site 627192001499 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 627192001500 putative active site [active] 627192001501 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 627192001502 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 627192001503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192001504 Walker A/P-loop; other site 627192001505 ATP binding site [chemical binding]; other site 627192001506 Q-loop/lid; other site 627192001507 ABC transporter signature motif; other site 627192001508 Walker B; other site 627192001509 D-loop; other site 627192001510 H-loop/switch region; other site 627192001511 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 627192001512 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 627192001513 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 627192001514 putative efflux protein, MATE family; Region: matE; TIGR00797 627192001515 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 627192001516 Autotransporter beta-domain; Region: Autotransporter; pfam03797 627192001517 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 627192001518 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 627192001519 putative molybdopterin cofactor binding site [chemical binding]; other site 627192001520 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 627192001521 putative molybdopterin cofactor binding site; other site 627192001522 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 627192001523 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 627192001524 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 627192001525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192001526 homodimer interface [polypeptide binding]; other site 627192001527 catalytic residue [active] 627192001528 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 627192001529 Hemerythrin-like domain; Region: Hr-like; cd12108 627192001530 Fe binding site [ion binding]; other site 627192001531 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 627192001532 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 627192001533 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 627192001534 active site 627192001535 DNA binding site [nucleotide binding] 627192001536 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 627192001537 DNA binding site [nucleotide binding] 627192001538 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 627192001539 nucleotide binding site [chemical binding]; other site 627192001540 MgtC family; Region: MgtC; pfam02308 627192001541 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 627192001542 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 627192001543 putative DNA binding site [nucleotide binding]; other site 627192001544 putative homodimer interface [polypeptide binding]; other site 627192001545 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 627192001546 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 627192001547 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 627192001548 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 627192001549 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 627192001550 N-terminal plug; other site 627192001551 ligand-binding site [chemical binding]; other site 627192001552 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 627192001553 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 627192001554 FAD binding pocket [chemical binding]; other site 627192001555 FAD binding motif [chemical binding]; other site 627192001556 phosphate binding motif [ion binding]; other site 627192001557 beta-alpha-beta structure motif; other site 627192001558 NAD binding pocket [chemical binding]; other site 627192001559 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 627192001560 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 627192001561 N-terminal plug; other site 627192001562 ligand-binding site [chemical binding]; other site 627192001563 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192001564 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 627192001565 active site 627192001566 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192001567 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 627192001568 active site 627192001569 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 627192001570 Trp docking motif [polypeptide binding]; other site 627192001571 putative active site [active] 627192001572 Autotransporter beta-domain; Region: Autotransporter; pfam03797 627192001573 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 627192001574 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192001575 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 627192001576 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 627192001577 FecR protein; Region: FecR; pfam04773 627192001578 Suppressor of Fused Gli/Ci N terminal binding domain; Region: SUFU_C; pfam12470 627192001579 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192001580 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 627192001581 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192001582 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 627192001583 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 627192001584 active site 627192001585 homotetramer interface [polypeptide binding]; other site 627192001586 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 627192001587 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 627192001588 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 627192001589 Low molecular weight phosphatase family; Region: LMWPc; cd00115 627192001590 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 627192001591 active site 627192001592 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 627192001593 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 627192001594 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 627192001595 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 627192001596 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 627192001597 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 627192001598 dimer interface [polypeptide binding]; other site 627192001599 conserved gate region; other site 627192001600 putative PBP binding loops; other site 627192001601 ABC-ATPase subunit interface; other site 627192001602 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 627192001603 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 627192001604 dimer interface [polypeptide binding]; other site 627192001605 conserved gate region; other site 627192001606 putative PBP binding loops; other site 627192001607 ABC-ATPase subunit interface; other site 627192001608 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 627192001609 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 627192001610 Walker A/P-loop; other site 627192001611 ATP binding site [chemical binding]; other site 627192001612 Q-loop/lid; other site 627192001613 ABC transporter signature motif; other site 627192001614 Walker B; other site 627192001615 D-loop; other site 627192001616 H-loop/switch region; other site 627192001617 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 627192001618 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 627192001619 Walker A/P-loop; other site 627192001620 ATP binding site [chemical binding]; other site 627192001621 Q-loop/lid; other site 627192001622 ABC transporter signature motif; other site 627192001623 Walker B; other site 627192001624 D-loop; other site 627192001625 H-loop/switch region; other site 627192001626 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 627192001627 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 627192001628 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 627192001629 membrane-bound complex binding site; other site 627192001630 hinge residues; other site 627192001631 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 627192001632 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 627192001633 catalytic site [active] 627192001634 G-X2-G-X-G-K; other site 627192001635 Entericidin EcnA/B family; Region: Entericidin; cl02322 627192001636 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 627192001637 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 627192001638 Entericidin EcnA/B family; Region: Entericidin; cl02322 627192001639 HNH endonuclease; Region: HNH_2; pfam13391 627192001640 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 627192001641 dimer interface [polypeptide binding]; other site 627192001642 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 627192001643 putative radical transfer pathway; other site 627192001644 diiron center [ion binding]; other site 627192001645 tyrosyl radical; other site 627192001646 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 627192001647 Class I ribonucleotide reductase; Region: RNR_I; cd01679 627192001648 active site 627192001649 dimer interface [polypeptide binding]; other site 627192001650 catalytic residues [active] 627192001651 effector binding site; other site 627192001652 R2 peptide binding site; other site 627192001653 Uncharacterized conserved protein [Function unknown]; Region: COG3743 627192001654 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 627192001655 putative substrate translocation pore; other site 627192001656 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 627192001657 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 627192001658 dimer interface [polypeptide binding]; other site 627192001659 putative CheW interface [polypeptide binding]; other site 627192001660 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 627192001661 Transposase; Region: HTH_Tnp_1; cl17663 627192001662 Winged helix-turn helix; Region: HTH_29; pfam13551 627192001663 Integrase core domain; Region: rve; pfam00665 627192001664 Integrase core domain; Region: rve_3; pfam13683 627192001665 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 627192001666 Beta-lactamase; Region: Beta-lactamase; pfam00144 627192001667 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 627192001668 Fumarase C-terminus; Region: Fumerase_C; pfam05683 627192001669 Predicted membrane protein [Function unknown]; Region: COG2261 627192001670 N-acetyltransferase; Region: Acetyltransf_2; cl00949 627192001671 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 627192001672 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 627192001673 PEP-CTERM motif; Region: VPEP; pfam07589 627192001674 hypothetical protein; Provisional; Region: PRK14852 627192001675 excinuclease ABC subunit B; Provisional; Region: PRK05298 627192001676 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 627192001677 ATP binding site [chemical binding]; other site 627192001678 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 627192001679 nucleotide binding region [chemical binding]; other site 627192001680 ATP-binding site [chemical binding]; other site 627192001681 Ultra-violet resistance protein B; Region: UvrB; pfam12344 627192001682 UvrB/uvrC motif; Region: UVR; pfam02151 627192001683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192001684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192001685 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 627192001686 putative effector binding pocket; other site 627192001687 putative dimerization interface [polypeptide binding]; other site 627192001688 SnoaL-like domain; Region: SnoaL_2; pfam12680 627192001689 short chain dehydrogenase; Provisional; Region: PRK06523 627192001690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192001691 NAD(P) binding site [chemical binding]; other site 627192001692 active site 627192001693 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 627192001694 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192001695 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192001696 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 627192001697 Protein of unknown function (DUF445); Region: DUF445; pfam04286 627192001698 NRDE protein; Region: NRDE; cl01315 627192001699 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 627192001700 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 627192001701 FeS/SAM binding site; other site 627192001702 HemN C-terminal domain; Region: HemN_C; pfam06969 627192001703 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 627192001704 active site 627192001705 dimerization interface [polypeptide binding]; other site 627192001706 ribonuclease PH; Reviewed; Region: rph; PRK00173 627192001707 Ribonuclease PH; Region: RNase_PH_bact; cd11362 627192001708 hexamer interface [polypeptide binding]; other site 627192001709 active site 627192001710 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 627192001711 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 627192001712 heat shock protein GrpE; Provisional; Region: PRK14141 627192001713 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 627192001714 dimer interface [polypeptide binding]; other site 627192001715 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 627192001716 PEP-CTERM motif; Region: VPEP; pfam07589 627192001717 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 627192001718 classical (c) SDRs; Region: SDR_c; cd05233 627192001719 NAD(P) binding site [chemical binding]; other site 627192001720 active site 627192001721 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 627192001722 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 627192001723 Uncharacterized conserved protein [Function unknown]; Region: COG2128 627192001724 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 627192001725 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 627192001726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192001727 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 627192001728 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 627192001729 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 627192001730 ATP binding site [chemical binding]; other site 627192001731 Mg++ binding site [ion binding]; other site 627192001732 motif III; other site 627192001733 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 627192001734 nucleotide binding region [chemical binding]; other site 627192001735 ATP-binding site [chemical binding]; other site 627192001736 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 627192001737 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 627192001738 RES domain; Region: RES; pfam08808 627192001739 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 627192001740 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 627192001741 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 627192001742 pyruvate kinase; Provisional; Region: PRK06247 627192001743 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 627192001744 domain interfaces; other site 627192001745 active site 627192001746 SIR2-like domain; Region: SIR2_2; pfam13289 627192001747 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 627192001748 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192001749 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 627192001750 iron-sulfur cluster [ion binding]; other site 627192001751 [2Fe-2S] cluster binding site [ion binding]; other site 627192001752 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 627192001753 hydrophobic ligand binding site; other site 627192001754 tetracycline repressor protein TetR; Provisional; Region: PRK13756 627192001755 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192001756 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 627192001757 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 627192001758 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 627192001759 Predicted membrane protein [Function unknown]; Region: COG1238 627192001760 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 627192001761 UbiA prenyltransferase family; Region: UbiA; pfam01040 627192001762 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 627192001763 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 627192001764 active site 627192001765 Zn binding site [ion binding]; other site 627192001766 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 627192001767 active site 627192001768 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 627192001769 Dienelactone hydrolase family; Region: DLH; pfam01738 627192001770 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192001771 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 627192001772 catalytic core [active] 627192001773 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 627192001774 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 627192001775 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192001776 metal binding site [ion binding]; metal-binding site 627192001777 active site 627192001778 I-site; other site 627192001779 Predicted acetyltransferase [General function prediction only]; Region: COG2388 627192001780 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 627192001781 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 627192001782 ATP-grasp domain; Region: ATP-grasp; pfam02222 627192001783 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 627192001784 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 627192001785 folate binding site [chemical binding]; other site 627192001786 NADP+ binding site [chemical binding]; other site 627192001787 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 627192001788 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 627192001789 active site 627192001790 Riboflavin kinase; Region: Flavokinase; pfam01687 627192001791 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 627192001792 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192001793 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 627192001794 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 627192001795 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192001796 active site 627192001797 HIGH motif; other site 627192001798 nucleotide binding site [chemical binding]; other site 627192001799 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 627192001800 active site 627192001801 KMSKS motif; other site 627192001802 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 627192001803 tRNA binding surface [nucleotide binding]; other site 627192001804 anticodon binding site; other site 627192001805 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 627192001806 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 627192001807 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 627192001808 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 627192001809 Protein of unknown function DUF72; Region: DUF72; pfam01904 627192001810 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 627192001811 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 627192001812 TPP-binding site; other site 627192001813 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 627192001814 PYR/PP interface [polypeptide binding]; other site 627192001815 dimer interface [polypeptide binding]; other site 627192001816 TPP binding site [chemical binding]; other site 627192001817 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 627192001818 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 627192001819 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192001820 active site 627192001821 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 627192001822 metal binding site 2 [ion binding]; metal-binding site 627192001823 putative DNA binding helix; other site 627192001824 metal binding site 1 [ion binding]; metal-binding site 627192001825 dimer interface [polypeptide binding]; other site 627192001826 structural Zn2+ binding site [ion binding]; other site 627192001827 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 627192001828 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 627192001829 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 627192001830 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 627192001831 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 627192001832 active site 627192001833 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 627192001834 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 627192001835 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 627192001836 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 627192001837 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 627192001838 Trp docking motif [polypeptide binding]; other site 627192001839 cytochrome domain interface [polypeptide binding]; other site 627192001840 active site 627192001841 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 627192001842 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192001843 peroxiredoxin; Region: AhpC; TIGR03137 627192001844 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 627192001845 dimer interface [polypeptide binding]; other site 627192001846 decamer (pentamer of dimers) interface [polypeptide binding]; other site 627192001847 catalytic triad [active] 627192001848 peroxidatic and resolving cysteines [active] 627192001849 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 627192001850 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 627192001851 catalytic residue [active] 627192001852 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 627192001853 catalytic residues [active] 627192001854 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192001855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192001856 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 627192001857 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 627192001858 active site 627192001859 Zn binding site [ion binding]; other site 627192001860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 627192001861 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 627192001862 RNA/DNA hybrid binding site [nucleotide binding]; other site 627192001863 active site 627192001864 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 627192001865 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 627192001866 putative active site [active] 627192001867 putative substrate binding site [chemical binding]; other site 627192001868 ATP binding site [chemical binding]; other site 627192001869 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 627192001870 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 627192001871 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 627192001872 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 627192001873 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 627192001874 active site 627192001875 HIGH motif; other site 627192001876 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192001877 KMSK motif region; other site 627192001878 tRNA binding surface [nucleotide binding]; other site 627192001879 DALR anticodon binding domain; Region: DALR_1; smart00836 627192001880 anticodon binding site; other site 627192001881 Sporulation related domain; Region: SPOR; pfam05036 627192001882 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 627192001883 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 627192001884 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 627192001885 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 627192001886 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 627192001887 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 627192001888 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 627192001889 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 627192001890 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 627192001891 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 627192001892 dimer interface [polypeptide binding]; other site 627192001893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192001894 catalytic residue [active] 627192001895 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 627192001896 cell division protein MraZ; Reviewed; Region: PRK00326 627192001897 MraZ protein; Region: MraZ; pfam02381 627192001898 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 627192001899 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 627192001900 S-adenosylmethionine binding site [chemical binding]; other site 627192001901 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 627192001902 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 627192001903 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 627192001904 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 627192001905 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 627192001906 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 627192001907 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 627192001908 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 627192001909 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 627192001910 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 627192001911 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 627192001912 Mg++ binding site [ion binding]; other site 627192001913 putative catalytic motif [active] 627192001914 putative substrate binding site [chemical binding]; other site 627192001915 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 627192001916 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 627192001917 cell division protein FtsW; Region: ftsW; TIGR02614 627192001918 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 627192001919 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 627192001920 active site 627192001921 homodimer interface [polypeptide binding]; other site 627192001922 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 627192001923 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 627192001924 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 627192001925 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 627192001926 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 627192001927 FAD binding domain; Region: FAD_binding_4; pfam01565 627192001928 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 627192001929 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 627192001930 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 627192001931 ATP-grasp domain; Region: ATP-grasp_4; cl17255 627192001932 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 627192001933 Cell division protein FtsQ; Region: FtsQ; pfam03799 627192001934 cell division protein FtsA; Region: ftsA; TIGR01174 627192001935 Cell division protein FtsA; Region: FtsA; smart00842 627192001936 Cell division protein FtsA; Region: FtsA; pfam14450 627192001937 cell division protein FtsZ; Validated; Region: PRK09330 627192001938 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 627192001939 nucleotide binding site [chemical binding]; other site 627192001940 SulA interaction site; other site 627192001941 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 627192001942 TPR motif; other site 627192001943 binding surface 627192001944 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 627192001945 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 627192001946 Zn2+ binding site [ion binding]; other site 627192001947 Mg2+ binding site [ion binding]; other site 627192001948 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 627192001949 Protein of unknown function (DUF938); Region: DUF938; pfam06080 627192001950 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 627192001951 EamA-like transporter family; Region: EamA; pfam00892 627192001952 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 627192001953 Predicted permeases [General function prediction only]; Region: RarD; COG2962 627192001954 PEP-CTERM motif; Region: VPEP; pfam07589 627192001955 methionine gamma-lyase; Validated; Region: PRK07049 627192001956 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 627192001957 homodimer interface [polypeptide binding]; other site 627192001958 substrate-cofactor binding pocket; other site 627192001959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192001960 catalytic residue [active] 627192001961 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 627192001962 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 627192001963 hinge; other site 627192001964 active site 627192001965 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 627192001966 hypothetical protein; Provisional; Region: PRK07338 627192001967 metal binding site [ion binding]; metal-binding site 627192001968 dimer interface [polypeptide binding]; other site 627192001969 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 627192001970 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 627192001971 active site 627192001972 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 627192001973 active site 627192001974 HIGH motif; other site 627192001975 nucleotide binding site [chemical binding]; other site 627192001976 KMSKS motif; other site 627192001977 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 627192001978 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 627192001979 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 627192001980 putative catalytic cysteine [active] 627192001981 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 627192001982 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 627192001983 aminotransferase; Validated; Region: PRK09148 627192001984 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 627192001985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192001986 homodimer interface [polypeptide binding]; other site 627192001987 catalytic residue [active] 627192001988 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 627192001989 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 627192001990 Phasin protein; Region: Phasin_2; pfam09361 627192001991 Uncharacterized conserved protein [Function unknown]; Region: COG2127 627192001992 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 627192001993 putative DNA binding site [nucleotide binding]; other site 627192001994 putative Zn2+ binding site [ion binding]; other site 627192001995 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 627192001996 ArsC family; Region: ArsC; pfam03960 627192001997 catalytic residues [active] 627192001998 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 627192001999 Sodium Bile acid symporter family; Region: SBF; cl17470 627192002000 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 627192002001 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 627192002002 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 627192002003 active site 627192002004 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 627192002005 MgtE intracellular N domain; Region: MgtE_N; smart00924 627192002006 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 627192002007 Divalent cation transporter; Region: MgtE; pfam01769 627192002008 Transmembrane secretion effector; Region: MFS_3; pfam05977 627192002009 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 627192002010 putative substrate translocation pore; other site 627192002011 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 627192002012 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 627192002013 active site 627192002014 metal binding site [ion binding]; metal-binding site 627192002015 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 627192002016 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192002017 MarR family; Region: MarR_2; pfam12802 627192002018 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 627192002019 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 627192002020 dimer interface [polypeptide binding]; other site 627192002021 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 627192002022 active site 627192002023 Fe binding site [ion binding]; other site 627192002024 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 627192002025 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192002026 Zn binding site [ion binding]; other site 627192002027 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 627192002028 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 627192002029 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192002030 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 627192002031 maleylacetoacetate isomerase; Region: maiA; TIGR01262 627192002032 C-terminal domain interface [polypeptide binding]; other site 627192002033 GSH binding site (G-site) [chemical binding]; other site 627192002034 putative dimer interface [polypeptide binding]; other site 627192002035 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 627192002036 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 627192002037 N-terminal domain interface [polypeptide binding]; other site 627192002038 Predicted transcriptional regulators [Transcription]; Region: COG1733 627192002039 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 627192002040 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 627192002041 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 627192002042 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 627192002043 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 627192002044 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 627192002045 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 627192002046 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 627192002047 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 627192002048 Walker A/P-loop; other site 627192002049 ATP binding site [chemical binding]; other site 627192002050 Q-loop/lid; other site 627192002051 ABC transporter signature motif; other site 627192002052 Walker B; other site 627192002053 D-loop; other site 627192002054 H-loop/switch region; other site 627192002055 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 627192002056 active site 627192002057 catalytic triad [active] 627192002058 oxyanion hole [active] 627192002059 switch loop; other site 627192002060 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192002061 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 627192002062 active site 627192002063 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 627192002064 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 627192002065 S-adenosylmethionine binding site [chemical binding]; other site 627192002066 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 627192002067 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 627192002068 active site 627192002069 motif I; other site 627192002070 motif II; other site 627192002071 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 627192002072 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 627192002073 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 627192002074 active site 627192002075 catalytic residues [active] 627192002076 metal binding site [ion binding]; metal-binding site 627192002077 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 627192002078 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 627192002079 ATP-grasp domain; Region: ATP-grasp_4; cl17255 627192002080 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 627192002081 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 627192002082 carboxyltransferase (CT) interaction site; other site 627192002083 biotinylation site [posttranslational modification]; other site 627192002084 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 627192002085 hypothetical protein; Provisional; Region: PRK08296 627192002086 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 627192002087 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 627192002088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192002089 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 627192002090 putative substrate translocation pore; other site 627192002091 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 627192002092 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192002093 MarR family; Region: MarR_2; pfam12802 627192002094 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 627192002095 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 627192002096 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 627192002097 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192002098 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 627192002099 benzoate transport; Region: 2A0115; TIGR00895 627192002100 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 627192002101 putative substrate translocation pore; other site 627192002102 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 627192002103 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 627192002104 DXD motif; other site 627192002105 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 627192002106 SurA N-terminal domain; Region: SurA_N_3; cl07813 627192002107 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 627192002108 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 627192002109 Protein of unknown function (DUF511); Region: DUF511; cl01114 627192002110 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 627192002111 catalytic residues [active] 627192002112 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 627192002113 active site 627192002114 oxyanion hole [active] 627192002115 catalytic triad [active] 627192002116 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 627192002117 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 627192002118 minor groove reading motif; other site 627192002119 helix-hairpin-helix signature motif; other site 627192002120 substrate binding pocket [chemical binding]; other site 627192002121 active site 627192002122 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 627192002123 dihydrodipicolinate reductase; Provisional; Region: PRK00048 627192002124 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 627192002125 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 627192002126 NAD-dependent deacetylase; Provisional; Region: PRK00481 627192002127 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 627192002128 NAD+ binding site [chemical binding]; other site 627192002129 substrate binding site [chemical binding]; other site 627192002130 Zn binding site [ion binding]; other site 627192002131 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 627192002132 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 627192002133 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 627192002134 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 627192002135 putative phosphate acyltransferase; Provisional; Region: PRK05331 627192002136 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 627192002137 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 627192002138 dimer interface [polypeptide binding]; other site 627192002139 active site 627192002140 CoA binding pocket [chemical binding]; other site 627192002141 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 627192002142 IHF dimer interface [polypeptide binding]; other site 627192002143 IHF - DNA interface [nucleotide binding]; other site 627192002144 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 627192002145 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 627192002146 DNA binding residues [nucleotide binding] 627192002147 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 627192002148 catalytic core [active] 627192002149 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 627192002150 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 627192002151 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 627192002152 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 627192002153 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192002154 active site 627192002155 nucleotide binding site [chemical binding]; other site 627192002156 HIGH motif; other site 627192002157 KMSKS motif; other site 627192002158 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 627192002159 active site 627192002160 phosphorylation site [posttranslational modification] 627192002161 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 627192002162 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 627192002163 NAD binding site [chemical binding]; other site 627192002164 substrate binding site [chemical binding]; other site 627192002165 catalytic Zn binding site [ion binding]; other site 627192002166 tetramer interface [polypeptide binding]; other site 627192002167 structural Zn binding site [ion binding]; other site 627192002168 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 627192002169 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192002170 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192002171 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 627192002172 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 627192002173 Walker A/P-loop; other site 627192002174 ATP binding site [chemical binding]; other site 627192002175 Q-loop/lid; other site 627192002176 ABC transporter signature motif; other site 627192002177 Walker B; other site 627192002178 D-loop; other site 627192002179 H-loop/switch region; other site 627192002180 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 627192002181 Walker A/P-loop; other site 627192002182 ATP binding site [chemical binding]; other site 627192002183 Q-loop/lid; other site 627192002184 ABC transporter signature motif; other site 627192002185 Walker B; other site 627192002186 D-loop; other site 627192002187 H-loop/switch region; other site 627192002188 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 627192002189 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 627192002190 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 627192002191 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 627192002192 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 627192002193 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 627192002194 Ligand Binding Site [chemical binding]; other site 627192002195 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 627192002196 Domain of unknown function (DUF892); Region: DUF892; pfam05974 627192002197 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 627192002198 dimanganese center [ion binding]; other site 627192002199 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 627192002200 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 627192002201 ligand binding site [chemical binding]; other site 627192002202 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 627192002203 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 627192002204 TIR domain; Region: TIR_2; pfam13676 627192002205 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192002206 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 627192002207 NAD(P) binding site [chemical binding]; other site 627192002208 catalytic residues [active] 627192002209 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192002210 Histidine kinase; Region: HisKA_2; pfam07568 627192002211 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 627192002212 Mg2+ binding site [ion binding]; other site 627192002213 G-X-G motif; other site 627192002214 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 627192002215 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 627192002216 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 627192002217 Glutamate binding site [chemical binding]; other site 627192002218 NAD binding site [chemical binding]; other site 627192002219 catalytic residues [active] 627192002220 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 627192002221 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 627192002222 putative DNA binding site [nucleotide binding]; other site 627192002223 putative Zn2+ binding site [ion binding]; other site 627192002224 AsnC family; Region: AsnC_trans_reg; pfam01037 627192002225 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 627192002226 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 627192002227 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 627192002228 TPR motif; other site 627192002229 binding surface 627192002230 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 627192002231 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 627192002232 active site 627192002233 FMN binding site [chemical binding]; other site 627192002234 substrate binding site [chemical binding]; other site 627192002235 homotetramer interface [polypeptide binding]; other site 627192002236 catalytic residue [active] 627192002237 Serine hydrolase; Region: Ser_hydrolase; pfam06821 627192002238 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192002239 short chain dehydrogenase; Provisional; Region: PRK06500 627192002240 classical (c) SDRs; Region: SDR_c; cd05233 627192002241 NAD(P) binding site [chemical binding]; other site 627192002242 active site 627192002243 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 627192002244 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 627192002245 active site 627192002246 catalytic site [active] 627192002247 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 627192002248 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 627192002249 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 627192002250 Sulfate transporter family; Region: Sulfate_transp; pfam00916 627192002251 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 627192002252 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 627192002253 TPR motif; other site 627192002254 binding surface 627192002255 TPR repeat; Region: TPR_11; pfam13414 627192002256 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 627192002257 binding surface 627192002258 TPR motif; other site 627192002259 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192002260 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 627192002261 C-terminal domain interface [polypeptide binding]; other site 627192002262 GSH binding site (G-site) [chemical binding]; other site 627192002263 dimer interface [polypeptide binding]; other site 627192002264 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 627192002265 N-terminal domain interface [polypeptide binding]; other site 627192002266 classical (c) SDRs; Region: SDR_c; cd05233 627192002267 NAD(P) binding site [chemical binding]; other site 627192002268 active site 627192002269 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 627192002270 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 627192002271 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192002272 MarR family; Region: MarR; pfam01047 627192002273 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 627192002274 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192002275 NAD binding site [chemical binding]; other site 627192002276 catalytic residues [active] 627192002277 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 627192002278 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 627192002279 Trp docking motif [polypeptide binding]; other site 627192002280 active site 627192002281 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192002282 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 627192002283 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 627192002284 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 627192002285 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 627192002286 Amidohydrolase; Region: Amidohydro_4; pfam13147 627192002287 active site 627192002288 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 627192002289 NADH(P)-binding; Region: NAD_binding_10; pfam13460 627192002290 NADP binding site [chemical binding]; other site 627192002291 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 627192002292 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 627192002293 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 627192002294 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 627192002295 DsbD alpha interface [polypeptide binding]; other site 627192002296 catalytic residues [active] 627192002297 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 627192002298 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 627192002299 RNA binding surface [nucleotide binding]; other site 627192002300 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 627192002301 S-adenosylmethionine binding site [chemical binding]; other site 627192002302 TspO/MBR family; Region: TspO_MBR; pfam03073 627192002303 Membrane fusogenic activity; Region: BMFP; pfam04380 627192002304 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 627192002305 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 627192002306 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 627192002307 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 627192002308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192002309 Walker A/P-loop; other site 627192002310 ATP binding site [chemical binding]; other site 627192002311 Q-loop/lid; other site 627192002312 ABC transporter signature motif; other site 627192002313 Walker B; other site 627192002314 D-loop; other site 627192002315 H-loop/switch region; other site 627192002316 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192002317 MarR family; Region: MarR_2; pfam12802 627192002318 MFS/sugar transport protein; Region: MFS_2; pfam13347 627192002319 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 627192002320 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 627192002321 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 627192002322 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 627192002323 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 627192002324 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 627192002325 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192002326 HAMP domain; Region: HAMP; pfam00672 627192002327 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 627192002328 dimer interface [polypeptide binding]; other site 627192002329 phosphorylation site [posttranslational modification] 627192002330 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 627192002331 ATP binding site [chemical binding]; other site 627192002332 Mg2+ binding site [ion binding]; other site 627192002333 G-X-G motif; other site 627192002334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192002335 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 627192002336 active site 627192002337 phosphorylation site [posttranslational modification] 627192002338 intermolecular recognition site; other site 627192002339 dimerization interface [polypeptide binding]; other site 627192002340 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 627192002341 DNA binding site [nucleotide binding] 627192002342 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 627192002343 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192002344 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192002345 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 627192002346 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 627192002347 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 627192002348 mercuric reductase; Validated; Region: PRK06370 627192002349 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 627192002350 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192002351 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 627192002352 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 627192002353 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 627192002354 ligand binding site [chemical binding]; other site 627192002355 flexible hinge region; other site 627192002356 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 627192002357 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 627192002358 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 627192002359 Predicted membrane protein [Function unknown]; Region: COG2311 627192002360 Protein of unknown function (DUF418); Region: DUF418; cl12135 627192002361 Protein of unknown function (DUF418); Region: DUF418; pfam04235 627192002362 Transcriptional regulators [Transcription]; Region: FadR; COG2186 627192002363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192002364 DNA-binding site [nucleotide binding]; DNA binding site 627192002365 FCD domain; Region: FCD; pfam07729 627192002366 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 627192002367 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192002368 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 627192002369 hydrophobic ligand binding site; other site 627192002370 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 627192002371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192002372 catalytic residue [active] 627192002373 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 627192002374 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192002375 putative substrate translocation pore; other site 627192002376 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192002377 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 627192002378 NAD(P) binding site [chemical binding]; other site 627192002379 catalytic residues [active] 627192002380 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 627192002381 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 627192002382 active site 627192002383 catalytic tetrad [active] 627192002384 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 627192002385 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 627192002386 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 627192002387 active site 627192002388 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 627192002389 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 627192002390 active site 627192002391 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 627192002392 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 627192002393 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192002394 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 627192002395 CoA binding domain; Region: CoA_binding_2; pfam13380 627192002396 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 627192002397 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 627192002398 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 627192002399 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 627192002400 substrate binding site [chemical binding]; other site 627192002401 oxyanion hole (OAH) forming residues; other site 627192002402 trimer interface [polypeptide binding]; other site 627192002403 thiolase; Provisional; Region: PRK06158 627192002404 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 627192002405 active site 627192002406 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 627192002407 DUF35 OB-fold domain; Region: DUF35; pfam01796 627192002408 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 627192002409 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 627192002410 substrate binding pocket [chemical binding]; other site 627192002411 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192002412 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 627192002413 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 627192002414 putative substrate translocation pore; other site 627192002415 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate; Region: 3MGA_Dioxygenase; cd07366 627192002416 putative active site [active] 627192002417 putative Fe(II) binding site [ion binding]; other site 627192002418 putative dimer interface [polypeptide binding]; other site 627192002419 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 627192002420 putative tetramer interface [polypeptide binding]; other site 627192002421 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 627192002422 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 627192002423 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192002424 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 627192002425 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 627192002426 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 627192002427 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192002428 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 627192002429 alpha subunit interface [polypeptide binding]; other site 627192002430 active site 627192002431 substrate binding site [chemical binding]; other site 627192002432 Fe binding site [ion binding]; other site 627192002433 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192002434 MarR family; Region: MarR_2; pfam12802 627192002435 MarR family; Region: MarR_2; cl17246 627192002436 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192002437 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 627192002438 NAD(P) binding site [chemical binding]; other site 627192002439 catalytic residues [active] 627192002440 PIN domain; Region: PIN_3; pfam13470 627192002441 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 627192002442 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 627192002443 PYR/PP interface [polypeptide binding]; other site 627192002444 dimer interface [polypeptide binding]; other site 627192002445 TPP binding site [chemical binding]; other site 627192002446 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 627192002447 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 627192002448 TPP-binding site [chemical binding]; other site 627192002449 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 627192002450 methionine synthase; Provisional; Region: PRK01207 627192002451 substrate binding site [chemical binding]; other site 627192002452 THF binding site; other site 627192002453 zinc-binding site [ion binding]; other site 627192002454 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192002455 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192002456 MarR family; Region: MarR_2; pfam12802 627192002457 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 627192002458 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 627192002459 substrate binding site [chemical binding]; other site 627192002460 oxyanion hole (OAH) forming residues; other site 627192002461 trimer interface [polypeptide binding]; other site 627192002462 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 627192002463 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 627192002464 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 627192002465 MltA-interacting protein MipA; Region: MipA; cl01504 627192002466 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192002467 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192002468 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 627192002469 MarR family; Region: MarR_2; pfam12802 627192002470 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192002471 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 627192002472 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 627192002473 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 627192002474 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 627192002475 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 627192002476 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 627192002477 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192002478 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192002479 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 627192002480 active site 627192002481 phosphorylation site [posttranslational modification] 627192002482 intermolecular recognition site; other site 627192002483 dimerization interface [polypeptide binding]; other site 627192002484 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 627192002485 DNA binding site [nucleotide binding] 627192002486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192002487 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 627192002488 Mg2+ binding site [ion binding]; other site 627192002489 G-X-G motif; other site 627192002490 MarR family; Region: MarR_2; pfam12802 627192002491 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192002492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 627192002493 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 627192002494 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 627192002495 inhibitor-cofactor binding pocket; inhibition site 627192002496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192002497 catalytic residue [active] 627192002498 Ectoine synthase; Region: Ectoine_synth; pfam06339 627192002499 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 627192002500 aspartate kinase; Validated; Region: PRK09181 627192002501 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 627192002502 putative catalytic residues [active] 627192002503 putative nucleotide binding site [chemical binding]; other site 627192002504 putative aspartate binding site [chemical binding]; other site 627192002505 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 627192002506 allosteric regulatory residue; other site 627192002507 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 627192002508 putative MFS family transporter protein; Provisional; Region: PRK03633 627192002509 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 627192002510 putative substrate translocation pore; other site 627192002511 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 627192002512 metabolite-proton symporter; Region: 2A0106; TIGR00883 627192002513 putative substrate translocation pore; other site 627192002514 MerC mercury resistance protein; Region: MerC; cl03934 627192002515 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 627192002516 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 627192002517 Walker A motif; other site 627192002518 ATP binding site [chemical binding]; other site 627192002519 Walker B motif; other site 627192002520 KaiC; Region: KaiC; pfam06745 627192002521 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 627192002522 Walker A motif; other site 627192002523 Walker A motif; other site 627192002524 ATP binding site [chemical binding]; other site 627192002525 Walker B motif; other site 627192002526 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 627192002527 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 627192002528 active site 627192002529 phosphorylation site [posttranslational modification] 627192002530 intermolecular recognition site; other site 627192002531 dimerization interface [polypeptide binding]; other site 627192002532 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 627192002533 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192002534 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 627192002535 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 627192002536 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 627192002537 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 627192002538 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 627192002539 active site 627192002540 Transcriptional regulators [Transcription]; Region: PurR; COG1609 627192002541 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 627192002542 DNA binding site [nucleotide binding] 627192002543 domain linker motif; other site 627192002544 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 627192002545 putative dimerization interface [polypeptide binding]; other site 627192002546 putative ligand binding site [chemical binding]; other site 627192002547 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 627192002548 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192002549 putative substrate translocation pore; other site 627192002550 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192002551 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 627192002552 N-terminal plug; other site 627192002553 ligand-binding site [chemical binding]; other site 627192002554 Tannase and feruloyl esterase; Region: Tannase; pfam07519 627192002555 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192002556 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192002557 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 627192002558 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 627192002559 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 627192002560 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 627192002561 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 627192002562 catalytic loop [active] 627192002563 iron binding site [ion binding]; other site 627192002564 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 627192002565 aldolase II superfamily protein; Provisional; Region: PRK07044 627192002566 intersubunit interface [polypeptide binding]; other site 627192002567 active site 627192002568 Zn2+ binding site [ion binding]; other site 627192002569 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 627192002570 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 627192002571 putative active site [active] 627192002572 putative metal binding site [ion binding]; other site 627192002573 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 627192002574 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 627192002575 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 627192002576 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 627192002577 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 627192002578 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 627192002579 Catalytic site [active] 627192002580 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 627192002581 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 627192002582 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 627192002583 active site 627192002584 hydrophilic channel; other site 627192002585 dimerization interface [polypeptide binding]; other site 627192002586 catalytic residues [active] 627192002587 active site lid [active] 627192002588 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 627192002589 active site 627192002590 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 627192002591 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 627192002592 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 627192002593 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 627192002594 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 627192002595 Subunit I/III interface [polypeptide binding]; other site 627192002596 D-pathway; other site 627192002597 Subunit I/VIIc interface [polypeptide binding]; other site 627192002598 Subunit I/IV interface [polypeptide binding]; other site 627192002599 Subunit I/II interface [polypeptide binding]; other site 627192002600 Low-spin heme (heme a) binding site [chemical binding]; other site 627192002601 Subunit I/VIIa interface [polypeptide binding]; other site 627192002602 Subunit I/VIa interface [polypeptide binding]; other site 627192002603 Dimer interface; other site 627192002604 Putative water exit pathway; other site 627192002605 Binuclear center (heme a3/CuB) [ion binding]; other site 627192002606 K-pathway; other site 627192002607 Subunit I/Vb interface [polypeptide binding]; other site 627192002608 Putative proton exit pathway; other site 627192002609 Subunit I/VIb interface; other site 627192002610 Subunit I/VIc interface [polypeptide binding]; other site 627192002611 Electron transfer pathway; other site 627192002612 Subunit I/VIIIb interface [polypeptide binding]; other site 627192002613 Subunit I/VIIb interface [polypeptide binding]; other site 627192002614 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 627192002615 UbiA prenyltransferase family; Region: UbiA; pfam01040 627192002616 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 627192002617 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 627192002618 Subunit III/VIIa interface [polypeptide binding]; other site 627192002619 Phospholipid binding site [chemical binding]; other site 627192002620 Subunit I/III interface [polypeptide binding]; other site 627192002621 Subunit III/VIb interface [polypeptide binding]; other site 627192002622 Subunit III/VIa interface; other site 627192002623 Subunit III/Vb interface [polypeptide binding]; other site 627192002624 Protein of unknown function (DUF983); Region: DUF983; cl02211 627192002625 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 627192002626 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 627192002627 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 627192002628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192002629 catalytic residue [active] 627192002630 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 627192002631 CcmB protein; Region: CcmB; cl17444 627192002632 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192002633 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 627192002634 Walker A/P-loop; other site 627192002635 ATP binding site [chemical binding]; other site 627192002636 Q-loop/lid; other site 627192002637 ABC transporter signature motif; other site 627192002638 Walker B; other site 627192002639 D-loop; other site 627192002640 H-loop/switch region; other site 627192002641 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 627192002642 aromatic arch; other site 627192002643 DCoH dimer interaction site [polypeptide binding]; other site 627192002644 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 627192002645 DCoH tetramer interaction site [polypeptide binding]; other site 627192002646 substrate binding site [chemical binding]; other site 627192002647 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 627192002648 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 627192002649 minor groove reading motif; other site 627192002650 helix-hairpin-helix signature motif; other site 627192002651 substrate binding pocket [chemical binding]; other site 627192002652 active site 627192002653 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 627192002654 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 627192002655 catalytic loop [active] 627192002656 iron binding site [ion binding]; other site 627192002657 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 627192002658 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 627192002659 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 627192002660 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 627192002661 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 627192002662 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 627192002663 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 627192002664 putative active site [active] 627192002665 putative active site [active] 627192002666 catalytic site [active] 627192002667 catalytic site [active] 627192002668 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 627192002669 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 627192002670 putative active site [active] 627192002671 putative active site [active] 627192002672 catalytic site [active] 627192002673 catalytic site [active] 627192002674 hypothetical protein; Provisional; Region: PRK06154 627192002675 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 627192002676 PYR/PP interface [polypeptide binding]; other site 627192002677 dimer interface [polypeptide binding]; other site 627192002678 TPP binding site [chemical binding]; other site 627192002679 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 627192002680 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 627192002681 TPP-binding site; other site 627192002682 dimer interface [polypeptide binding]; other site 627192002683 transcriptional regulator SlyA; Provisional; Region: PRK03573 627192002684 MarR family; Region: MarR; pfam01047 627192002685 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 627192002686 homodimer interface [polypeptide binding]; other site 627192002687 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 627192002688 active site pocket [active] 627192002689 glycogen branching enzyme; Provisional; Region: PRK05402 627192002690 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 627192002691 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 627192002692 active site 627192002693 catalytic site [active] 627192002694 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 627192002695 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 627192002696 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 627192002697 ligand binding site; other site 627192002698 oligomer interface; other site 627192002699 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 627192002700 dimer interface [polypeptide binding]; other site 627192002701 N-terminal domain interface [polypeptide binding]; other site 627192002702 sulfate 1 binding site; other site 627192002703 glycogen synthase; Provisional; Region: glgA; PRK00654 627192002704 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 627192002705 ADP-binding pocket [chemical binding]; other site 627192002706 homodimer interface [polypeptide binding]; other site 627192002707 phosphoglucomutase; Region: PLN02307 627192002708 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 627192002709 active site 627192002710 substrate binding site [chemical binding]; other site 627192002711 metal binding site [ion binding]; metal-binding site 627192002712 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 627192002713 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 627192002714 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 627192002715 active site 627192002716 catalytic site [active] 627192002717 hypothetical protein; Provisional; Region: PRK06194 627192002718 classical (c) SDRs; Region: SDR_c; cd05233 627192002719 NAD(P) binding site [chemical binding]; other site 627192002720 active site 627192002721 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192002722 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 627192002723 C-terminal domain interface [polypeptide binding]; other site 627192002724 GSH binding site (G-site) [chemical binding]; other site 627192002725 dimer interface [polypeptide binding]; other site 627192002726 Glutathione S-transferase, C-terminal domain; Region: GST_C; pfam00043 627192002727 N-terminal domain interface [polypeptide binding]; other site 627192002728 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 627192002729 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192002730 putative C-terminal domain interface [polypeptide binding]; other site 627192002731 putative GSH binding site (G-site) [chemical binding]; other site 627192002732 putative dimer interface [polypeptide binding]; other site 627192002733 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 627192002734 putative N-terminal domain interface [polypeptide binding]; other site 627192002735 putative dimer interface [polypeptide binding]; other site 627192002736 putative substrate binding pocket (H-site) [chemical binding]; other site 627192002737 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192002738 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 627192002739 C-terminal domain interface [polypeptide binding]; other site 627192002740 GSH binding site (G-site) [chemical binding]; other site 627192002741 dimer interface [polypeptide binding]; other site 627192002742 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 627192002743 N-terminal domain interface [polypeptide binding]; other site 627192002744 dimer interface [polypeptide binding]; other site 627192002745 substrate binding pocket (H-site) [chemical binding]; other site 627192002746 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 627192002747 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192002748 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 627192002749 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 627192002750 putative ADP-binding pocket [chemical binding]; other site 627192002751 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192002752 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 627192002753 putative active site [active] 627192002754 putative Zn binding site [ion binding]; other site 627192002755 Protein of unknown function (DUF560); Region: DUF560; pfam04575 627192002756 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 627192002757 lysophospholipid transporter LplT; Provisional; Region: PRK11195 627192002758 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 627192002759 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 627192002760 MoaE interaction surface [polypeptide binding]; other site 627192002761 MoeB interaction surface [polypeptide binding]; other site 627192002762 thiocarboxylated glycine; other site 627192002763 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 627192002764 MoaE homodimer interface [polypeptide binding]; other site 627192002765 MoaD interaction [polypeptide binding]; other site 627192002766 active site residues [active] 627192002767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192002768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192002769 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 627192002770 dimerization interface [polypeptide binding]; other site 627192002771 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 627192002772 serine O-acetyltransferase; Region: cysE; TIGR01172 627192002773 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 627192002774 trimer interface [polypeptide binding]; other site 627192002775 active site 627192002776 substrate binding site [chemical binding]; other site 627192002777 CoA binding site [chemical binding]; other site 627192002778 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 627192002779 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 627192002780 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 627192002781 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 627192002782 active site 627192002783 phosphorylation site [posttranslational modification] 627192002784 intermolecular recognition site; other site 627192002785 dimerization interface [polypeptide binding]; other site 627192002786 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 627192002787 DNA binding site [nucleotide binding] 627192002788 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 627192002789 PhoU domain; Region: PhoU; pfam01895 627192002790 PhoU domain; Region: PhoU; pfam01895 627192002791 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 627192002792 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 627192002793 Walker A/P-loop; other site 627192002794 ATP binding site [chemical binding]; other site 627192002795 Q-loop/lid; other site 627192002796 ABC transporter signature motif; other site 627192002797 Walker B; other site 627192002798 D-loop; other site 627192002799 H-loop/switch region; other site 627192002800 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 627192002801 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 627192002802 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 627192002803 dimer interface [polypeptide binding]; other site 627192002804 conserved gate region; other site 627192002805 putative PBP binding loops; other site 627192002806 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 627192002807 ABC-ATPase subunit interface; other site 627192002808 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 627192002809 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 627192002810 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 627192002811 dimer interface [polypeptide binding]; other site 627192002812 conserved gate region; other site 627192002813 putative PBP binding loops; other site 627192002814 ABC-ATPase subunit interface; other site 627192002815 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 627192002816 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 627192002817 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 627192002818 dimer interface [polypeptide binding]; other site 627192002819 phosphorylation site [posttranslational modification] 627192002820 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 627192002821 ATP binding site [chemical binding]; other site 627192002822 Mg2+ binding site [ion binding]; other site 627192002823 G-X-G motif; other site 627192002824 PqqD family protein, HPr-rel-A system; Region: PqqD_rel_X; TIGR04353 627192002825 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 627192002826 active site 627192002827 phosphoglycolate phosphatase; Provisional; Region: PRK13222 627192002828 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 627192002829 motif II; other site 627192002830 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 627192002831 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 627192002832 Substrate binding site; other site 627192002833 Mg++ binding site; other site 627192002834 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 627192002835 active site 627192002836 substrate binding site [chemical binding]; other site 627192002837 CoA binding site [chemical binding]; other site 627192002838 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 627192002839 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192002840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192002841 NAD(P) binding site [chemical binding]; other site 627192002842 active site 627192002843 Vitamin K epoxide reductase family in bacteria; Region: VKOR_2; cd12919 627192002844 putative active site [active] 627192002845 redox center [active] 627192002846 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 627192002847 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 627192002848 Low-spin heme binding site [chemical binding]; other site 627192002849 D-pathway; other site 627192002850 Putative water exit pathway; other site 627192002851 Binuclear center (active site) [active] 627192002852 K-pathway; other site 627192002853 Putative proton exit pathway; other site 627192002854 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 627192002855 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 627192002856 Cytochrome c; Region: Cytochrom_C; pfam00034 627192002857 Cytochrome c; Region: Cytochrom_C; pfam00034 627192002858 Cytochrome c; Region: Cytochrom_C; cl11414 627192002859 Cytochrome c; Region: Cytochrom_C; cl11414 627192002860 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 627192002861 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 627192002862 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 627192002863 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 627192002864 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 627192002865 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 627192002866 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 627192002867 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 627192002868 active site 627192002869 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 627192002870 catalytic motif [active] 627192002871 Catalytic residue [active] 627192002872 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 627192002873 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 627192002874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 627192002875 Family of unknown function (DUF490); Region: DUF490; pfam04357 627192002876 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 627192002877 Surface antigen; Region: Bac_surface_Ag; pfam01103 627192002878 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 627192002879 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192002880 Walker A/P-loop; other site 627192002881 ATP binding site [chemical binding]; other site 627192002882 Q-loop/lid; other site 627192002883 ABC transporter signature motif; other site 627192002884 Walker B; other site 627192002885 D-loop; other site 627192002886 H-loop/switch region; other site 627192002887 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 627192002888 ABC-ATPase subunit interface; other site 627192002889 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 627192002890 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 627192002891 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 627192002892 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 627192002893 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 627192002894 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192002895 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192002896 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192002897 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 627192002898 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 627192002899 GIY-YIG motif/motif A; other site 627192002900 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 627192002901 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 627192002902 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 627192002903 tetramer interface [polypeptide binding]; other site 627192002904 active site 627192002905 Mg2+/Mn2+ binding site [ion binding]; other site 627192002906 isocitrate lyase; Region: PLN02892 627192002907 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 627192002908 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 627192002909 non-specific DNA binding site [nucleotide binding]; other site 627192002910 salt bridge; other site 627192002911 sequence-specific DNA binding site [nucleotide binding]; other site 627192002912 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 627192002913 Domain of unknown function (DUF955); Region: DUF955; pfam06114 627192002914 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 627192002915 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192002916 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192002917 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 627192002918 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192002919 Predicted acyl esterases [General function prediction only]; Region: COG2936 627192002920 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 627192002921 PEP-CTERM motif; Region: VPEP; pfam07589 627192002922 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 627192002923 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 627192002924 SnoaL-like domain; Region: SnoaL_2; pfam12680 627192002925 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192002926 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192002927 MarR family; Region: MarR; pfam01047 627192002928 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192002929 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 627192002930 NAD(P) binding site [chemical binding]; other site 627192002931 catalytic residues [active] 627192002932 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192002933 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 627192002934 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 627192002935 catalytic Zn binding site [ion binding]; other site 627192002936 NAD binding site [chemical binding]; other site 627192002937 structural Zn binding site [ion binding]; other site 627192002938 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 627192002939 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192002940 substrate binding pocket [chemical binding]; other site 627192002941 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 627192002942 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192002943 SnoaL-like domain; Region: SnoaL_2; pfam12680 627192002944 benzoate transport; Region: 2A0115; TIGR00895 627192002945 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 627192002946 putative substrate translocation pore; other site 627192002947 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 627192002948 Domain of unknown function (DUF305); Region: DUF305; cl17794 627192002949 choline dehydrogenase; Validated; Region: PRK02106 627192002950 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 627192002951 SnoaL-like domain; Region: SnoaL_2; pfam12680 627192002952 choline dehydrogenase; Validated; Region: PRK02106 627192002953 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 627192002954 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 627192002955 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192002956 NAD(P) binding site [chemical binding]; other site 627192002957 catalytic residues [active] 627192002958 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192002959 MarR family; Region: MarR_2; pfam12802 627192002960 SnoaL-like domain; Region: SnoaL_2; pfam12680 627192002961 SnoaL-like domain; Region: SnoaL_2; pfam12680 627192002962 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 627192002963 classical (c) SDRs; Region: SDR_c; cd05233 627192002964 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 627192002965 NAD(P) binding site [chemical binding]; other site 627192002966 active site 627192002967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192002968 Predicted transcriptional regulators [Transcription]; Region: COG1733 627192002969 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 627192002970 putative Zn2+ binding site [ion binding]; other site 627192002971 putative DNA binding site [nucleotide binding]; other site 627192002972 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 627192002973 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 627192002974 active site 627192002975 DNA binding site [nucleotide binding] 627192002976 Int/Topo IB signature motif; other site 627192002977 catalytic residues [active] 627192002978 fumarate hydratase; Reviewed; Region: fumC; PRK00485 627192002979 Class II fumarases; Region: Fumarase_classII; cd01362 627192002980 active site 627192002981 tetramer interface [polypeptide binding]; other site 627192002982 PRC-barrel domain; Region: PRC; pfam05239 627192002983 short chain dehydrogenase; Provisional; Region: PRK06701 627192002984 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 627192002985 NAD binding site [chemical binding]; other site 627192002986 metal binding site [ion binding]; metal-binding site 627192002987 active site 627192002988 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 627192002989 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 627192002990 putative DNA binding site [nucleotide binding]; other site 627192002991 putative Zn2+ binding site [ion binding]; other site 627192002992 AsnC family; Region: AsnC_trans_reg; pfam01037 627192002993 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 627192002994 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 627192002995 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 627192002996 tetramer interface [polypeptide binding]; other site 627192002997 TPP-binding site [chemical binding]; other site 627192002998 heterodimer interface [polypeptide binding]; other site 627192002999 phosphorylation loop region [posttranslational modification] 627192003000 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 627192003001 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 627192003002 alpha subunit interface [polypeptide binding]; other site 627192003003 TPP binding site [chemical binding]; other site 627192003004 heterodimer interface [polypeptide binding]; other site 627192003005 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 627192003006 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 627192003007 E3 interaction surface; other site 627192003008 lipoyl attachment site [posttranslational modification]; other site 627192003009 e3 binding domain; Region: E3_binding; pfam02817 627192003010 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 627192003011 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 627192003012 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 627192003013 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192003014 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 627192003015 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 627192003016 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 627192003017 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 627192003018 putative active site [active] 627192003019 putative catalytic site [active] 627192003020 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 627192003021 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 627192003022 ATP-grasp domain; Region: ATP-grasp_4; cl17255 627192003023 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 627192003024 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 627192003025 carboxyltransferase (CT) interaction site; other site 627192003026 biotinylation site [posttranslational modification]; other site 627192003027 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 627192003028 isovaleryl-CoA dehydrogenase; Region: PLN02519 627192003029 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 627192003030 active site 627192003031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192003032 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 627192003033 dimerization interface [polypeptide binding]; other site 627192003034 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 627192003035 NADH(P)-binding; Region: NAD_binding_10; pfam13460 627192003036 NAD binding site [chemical binding]; other site 627192003037 substrate binding site [chemical binding]; other site 627192003038 putative active site [active] 627192003039 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 627192003040 active site 627192003041 catalytic triad [active] 627192003042 oxyanion hole [active] 627192003043 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 627192003044 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 627192003045 substrate binding site [chemical binding]; other site 627192003046 catalytic Zn binding site [ion binding]; other site 627192003047 NAD binding site [chemical binding]; other site 627192003048 structural Zn binding site [ion binding]; other site 627192003049 dimer interface [polypeptide binding]; other site 627192003050 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 627192003051 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 627192003052 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192003053 S-formylglutathione hydrolase; Region: PLN02442 627192003054 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 627192003055 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 627192003056 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192003057 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 627192003058 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192003059 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 627192003060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 627192003061 succinylarginine dihydrolase; Provisional; Region: PRK13281 627192003062 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 627192003063 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 627192003064 NAD(P) binding site [chemical binding]; other site 627192003065 catalytic residues [active] 627192003066 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 627192003067 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 627192003068 hypothetical protein; Provisional; Region: PRK07338 627192003069 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 627192003070 metal binding site [ion binding]; metal-binding site 627192003071 dimer interface [polypeptide binding]; other site 627192003072 benzoate transport; Region: 2A0115; TIGR00895 627192003073 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 627192003074 putative substrate translocation pore; other site 627192003075 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 627192003076 SnoaL-like domain; Region: SnoaL_4; cl17707 627192003077 Transcriptional regulators [Transcription]; Region: FadR; COG2186 627192003078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192003079 DNA-binding site [nucleotide binding]; DNA binding site 627192003080 FCD domain; Region: FCD; pfam07729 627192003081 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 627192003082 two-component response regulator; Provisional; Region: PRK09191 627192003083 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 627192003084 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 627192003085 active site 627192003086 phosphorylation site [posttranslational modification] 627192003087 intermolecular recognition site; other site 627192003088 dimerization interface [polypeptide binding]; other site 627192003089 CHASE domain; Region: CHASE; pfam03924 627192003090 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192003091 HWE histidine kinase; Region: HWE_HK; smart00911 627192003092 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 627192003093 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 627192003094 dimerization interface [polypeptide binding]; other site 627192003095 DPS ferroxidase diiron center [ion binding]; other site 627192003096 ion pore; other site 627192003097 RNA polymerase sigma factor; Provisional; Region: PRK12547 627192003098 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192003099 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 627192003100 DNA binding residues [nucleotide binding] 627192003101 Response regulator receiver domain; Region: Response_reg; pfam00072 627192003102 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 627192003103 active site 627192003104 phosphorylation site [posttranslational modification] 627192003105 intermolecular recognition site; other site 627192003106 dimerization interface [polypeptide binding]; other site 627192003107 CHASE2 domain; Region: CHASE2; pfam05226 627192003108 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 627192003109 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 627192003110 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 627192003111 putative active site [active] 627192003112 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 627192003113 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 627192003114 Walker A/P-loop; other site 627192003115 ATP binding site [chemical binding]; other site 627192003116 Q-loop/lid; other site 627192003117 ABC transporter signature motif; other site 627192003118 Walker B; other site 627192003119 D-loop; other site 627192003120 H-loop/switch region; other site 627192003121 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 627192003122 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 627192003123 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192003124 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 627192003125 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 627192003126 SLBB domain; Region: SLBB; pfam10531 627192003127 Chain length determinant protein; Region: Wzz; cl15801 627192003128 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 627192003129 ABC-2 type transporter; Region: ABC2_membrane; cl17235 627192003130 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 627192003131 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 627192003132 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 627192003133 Walker A/P-loop; other site 627192003134 ATP binding site [chemical binding]; other site 627192003135 Q-loop/lid; other site 627192003136 ABC transporter signature motif; other site 627192003137 Walker B; other site 627192003138 D-loop; other site 627192003139 H-loop/switch region; other site 627192003140 Transposase; Region: HTH_Tnp_1; pfam01527 627192003141 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 627192003142 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 627192003143 NADP binding site [chemical binding]; other site 627192003144 active site 627192003145 putative substrate binding site [chemical binding]; other site 627192003146 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 627192003147 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 627192003148 NADP-binding site; other site 627192003149 homotetramer interface [polypeptide binding]; other site 627192003150 substrate binding site [chemical binding]; other site 627192003151 homodimer interface [polypeptide binding]; other site 627192003152 active site 627192003153 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; cd01635 627192003154 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192003155 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 627192003156 metal-binding site 627192003157 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 627192003158 binding surface 627192003159 Tetratricopeptide repeat; Region: TPR_16; pfam13432 627192003160 TPR motif; other site 627192003161 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 627192003162 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192003163 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 627192003164 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192003165 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 627192003166 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192003167 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 627192003168 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 627192003169 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 627192003170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192003171 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 627192003172 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 627192003173 DDE superfamily endonuclease; Region: DDE_3; pfam13358 627192003174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 627192003175 Transposase; Region: HTH_Tnp_IS630; pfam01710 627192003176 Integrase core domain; Region: rve; pfam00665 627192003177 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192003178 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 627192003179 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 627192003180 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 627192003181 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 627192003182 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 627192003183 active site 627192003184 DNA binding site [nucleotide binding] 627192003185 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 627192003186 DNA binding site [nucleotide binding] 627192003187 Hemerythrin-like domain; Region: Hr-like; cd12108 627192003188 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 627192003189 active site 627192003190 catalytic site [active] 627192003191 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 627192003192 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 627192003193 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 627192003194 catalytic site [active] 627192003195 active site 627192003196 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 627192003197 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 627192003198 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 627192003199 active site 627192003200 catalytic site [active] 627192003201 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 627192003202 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 627192003203 ligand binding site; other site 627192003204 oligomer interface; other site 627192003205 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 627192003206 sulfate 1 binding site; other site 627192003207 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 627192003208 Predicted membrane protein [Function unknown]; Region: COG2261 627192003209 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 627192003210 GAF domain; Region: GAF; pfam01590 627192003211 PAS domain S-box; Region: sensory_box; TIGR00229 627192003212 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 627192003213 putative active site [active] 627192003214 heme pocket [chemical binding]; other site 627192003215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192003216 HWE histidine kinase; Region: HWE_HK; smart00911 627192003217 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 627192003218 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 627192003219 ligand binding site [chemical binding]; other site 627192003220 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 627192003221 putative switch regulator; other site 627192003222 non-specific DNA interactions [nucleotide binding]; other site 627192003223 DNA binding site [nucleotide binding] 627192003224 sequence specific DNA binding site [nucleotide binding]; other site 627192003225 putative cAMP binding site [chemical binding]; other site 627192003226 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 627192003227 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 627192003228 ligand binding site [chemical binding]; other site 627192003229 flexible hinge region; other site 627192003230 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 627192003231 non-specific DNA interactions [nucleotide binding]; other site 627192003232 DNA binding site [nucleotide binding] 627192003233 sequence specific DNA binding site [nucleotide binding]; other site 627192003234 putative cAMP binding site [chemical binding]; other site 627192003235 Domain of unknown function (DUF927); Region: DUF927; cl12098 627192003236 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 627192003237 putative deacylase active site [active] 627192003238 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 627192003239 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 627192003240 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 627192003241 Zn2+ binding site [ion binding]; other site 627192003242 Mg2+ binding site [ion binding]; other site 627192003243 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 627192003244 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 627192003245 oligomeric interface; other site 627192003246 putative active site [active] 627192003247 homodimer interface [polypeptide binding]; other site 627192003248 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 627192003249 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 627192003250 glutaminase active site [active] 627192003251 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 627192003252 dimer interface [polypeptide binding]; other site 627192003253 active site 627192003254 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 627192003255 dimer interface [polypeptide binding]; other site 627192003256 active site 627192003257 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 627192003258 active site 627192003259 DNA binding site [nucleotide binding] 627192003260 Int/Topo IB signature motif; other site 627192003261 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 627192003262 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 627192003263 MFS/sugar transport protein; Region: MFS_2; pfam13347 627192003264 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 627192003265 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 627192003266 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 627192003267 active site 627192003268 iron coordination sites [ion binding]; other site 627192003269 substrate binding pocket [chemical binding]; other site 627192003270 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 627192003271 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 627192003272 substrate binding pocket [chemical binding]; other site 627192003273 active site 627192003274 iron coordination sites [ion binding]; other site 627192003275 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 627192003276 Sulfatase; Region: Sulfatase; pfam00884 627192003277 Uncharacterized conserved protein [Function unknown]; Region: COG1262 627192003278 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 627192003279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192003280 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 627192003281 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192003282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192003283 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192003284 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 627192003285 Dienelactone hydrolase family; Region: DLH; pfam01738 627192003286 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 627192003287 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 627192003288 tetramer interface [polypeptide binding]; other site 627192003289 heme binding pocket [chemical binding]; other site 627192003290 NADPH binding site [chemical binding]; other site 627192003291 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192003292 Serine hydrolase; Region: Ser_hydrolase; cl17834 627192003293 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192003294 Response regulator receiver domain; Region: Response_reg; pfam00072 627192003295 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 627192003296 active site 627192003297 phosphorylation site [posttranslational modification] 627192003298 intermolecular recognition site; other site 627192003299 dimerization interface [polypeptide binding]; other site 627192003300 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 627192003301 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 627192003302 active site 627192003303 phosphorylation site [posttranslational modification] 627192003304 intermolecular recognition site; other site 627192003305 dimerization interface [polypeptide binding]; other site 627192003306 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 627192003307 DNA binding residues [nucleotide binding] 627192003308 dimerization interface [polypeptide binding]; other site 627192003309 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 627192003310 dimer interface [polypeptide binding]; other site 627192003311 phosphorylation site [posttranslational modification] 627192003312 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 627192003313 ATP binding site [chemical binding]; other site 627192003314 Mg2+ binding site [ion binding]; other site 627192003315 G-X-G motif; other site 627192003316 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 627192003317 Response regulator receiver domain; Region: Response_reg; pfam00072 627192003318 active site 627192003319 phosphorylation site [posttranslational modification] 627192003320 intermolecular recognition site; other site 627192003321 dimerization interface [polypeptide binding]; other site 627192003322 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 627192003323 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 627192003324 active site 627192003325 phosphorylation site [posttranslational modification] 627192003326 intermolecular recognition site; other site 627192003327 dimerization interface [polypeptide binding]; other site 627192003328 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 627192003329 DNA binding residues [nucleotide binding] 627192003330 dimerization interface [polypeptide binding]; other site 627192003331 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 627192003332 PAS fold; Region: PAS_3; pfam08447 627192003333 putative active site [active] 627192003334 heme pocket [chemical binding]; other site 627192003335 PAS domain; Region: PAS_9; pfam13426 627192003336 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 627192003337 dimer interface [polypeptide binding]; other site 627192003338 phosphorylation site [posttranslational modification] 627192003339 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 627192003340 ATP binding site [chemical binding]; other site 627192003341 Mg2+ binding site [ion binding]; other site 627192003342 G-X-G motif; other site 627192003343 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 627192003344 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192003345 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 627192003346 N-terminal plug; other site 627192003347 ligand-binding site [chemical binding]; other site 627192003348 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 627192003349 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 627192003350 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 627192003351 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 627192003352 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 627192003353 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 627192003354 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 627192003355 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 627192003356 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 627192003357 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 627192003358 N-terminal plug; other site 627192003359 ligand-binding site [chemical binding]; other site 627192003360 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192003361 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 627192003362 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 627192003363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192003364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192003365 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 627192003366 dimerization interface [polypeptide binding]; other site 627192003367 short chain dehydrogenase; Provisional; Region: PRK06180 627192003368 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 627192003369 NADP binding site [chemical binding]; other site 627192003370 active site 627192003371 steroid binding site; other site 627192003372 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192003373 Epoxide hydrolase N terminus; Region: EHN; pfam06441 627192003374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192003375 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 627192003376 active site 627192003377 metal binding site [ion binding]; metal-binding site 627192003378 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 627192003379 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 627192003380 motif II; other site 627192003381 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 627192003382 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 627192003383 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 627192003384 putative active site [active] 627192003385 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 627192003386 hypothetical protein; Reviewed; Region: PRK09588 627192003387 TROVE domain; Region: TROVE; pfam05731 627192003388 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 627192003389 metal ion-dependent adhesion site (MIDAS); other site 627192003390 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 627192003391 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 627192003392 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 627192003393 Walker A motif; other site 627192003394 ATP binding site [chemical binding]; other site 627192003395 Walker B motif; other site 627192003396 arginine finger; other site 627192003397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 627192003398 Homeodomain-like domain; Region: HTH_32; pfam13565 627192003399 DDE superfamily endonuclease; Region: DDE_3; pfam13358 627192003400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 627192003401 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 627192003402 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; cl00233 627192003403 catalytic center binding site [active] 627192003404 ATP binding site [chemical binding]; other site 627192003405 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 627192003406 Fe-S cluster binding site [ion binding]; other site 627192003407 DNA binding site [nucleotide binding] 627192003408 active site 627192003409 Response regulator receiver domain; Region: Response_reg; pfam00072 627192003410 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 627192003411 active site 627192003412 phosphorylation site [posttranslational modification] 627192003413 intermolecular recognition site; other site 627192003414 dimerization interface [polypeptide binding]; other site 627192003415 PAS domain; Region: PAS; smart00091 627192003416 PAS domain S-box; Region: sensory_box; TIGR00229 627192003417 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192003418 HWE histidine kinase; Region: HWE_HK; pfam07536 627192003419 Response regulator receiver domain; Region: Response_reg; pfam00072 627192003420 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 627192003421 active site 627192003422 phosphorylation site [posttranslational modification] 627192003423 intermolecular recognition site; other site 627192003424 dimerization interface [polypeptide binding]; other site 627192003425 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 627192003426 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 627192003427 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 627192003428 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 627192003429 GAF domain; Region: GAF_3; pfam13492 627192003430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192003431 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 627192003432 dimer interface [polypeptide binding]; other site 627192003433 phosphorylation site [posttranslational modification] 627192003434 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 627192003435 ATP binding site [chemical binding]; other site 627192003436 Mg2+ binding site [ion binding]; other site 627192003437 G-X-G motif; other site 627192003438 Response regulator receiver domain; Region: Response_reg; pfam00072 627192003439 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 627192003440 active site 627192003441 phosphorylation site [posttranslational modification] 627192003442 intermolecular recognition site; other site 627192003443 dimerization interface [polypeptide binding]; other site 627192003444 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 627192003445 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 627192003446 active site 627192003447 phosphorylation site [posttranslational modification] 627192003448 intermolecular recognition site; other site 627192003449 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 627192003450 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 627192003451 active site 627192003452 phosphorylation site [posttranslational modification] 627192003453 intermolecular recognition site; other site 627192003454 dimerization interface [polypeptide binding]; other site 627192003455 ATP-dependent DNA ligase; Validated; Region: PRK09247 627192003456 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 627192003457 active site 627192003458 DNA binding site [nucleotide binding] 627192003459 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 627192003460 DNA binding site [nucleotide binding] 627192003461 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 627192003462 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 627192003463 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 627192003464 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 627192003465 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 627192003466 adenosine deaminase; Provisional; Region: PRK09358 627192003467 active site 627192003468 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 627192003469 active site 627192003470 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 627192003471 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 627192003472 putative metal binding site [ion binding]; other site 627192003473 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 627192003474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192003475 metal binding site [ion binding]; metal-binding site 627192003476 active site 627192003477 I-site; other site 627192003478 Protein of unknown function (DUF466); Region: DUF466; pfam04328 627192003479 carbon starvation protein A; Provisional; Region: PRK15015 627192003480 Carbon starvation protein CstA; Region: CstA; pfam02554 627192003481 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 627192003482 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 627192003483 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 627192003484 catalytic residues [active] 627192003485 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 627192003486 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 627192003487 Cu(I) binding site [ion binding]; other site 627192003488 Protein of unknown function (DUF461); Region: DUF461; pfam04314 627192003489 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 627192003490 aconitate hydratase; Provisional; Region: acnA; PRK12881 627192003491 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 627192003492 substrate binding site [chemical binding]; other site 627192003493 ligand binding site [chemical binding]; other site 627192003494 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 627192003495 substrate binding site [chemical binding]; other site 627192003496 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 627192003497 active site 627192003498 catalytic residues [active] 627192003499 metal binding site [ion binding]; metal-binding site 627192003500 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 627192003501 Transcriptional regulator [Transcription]; Region: IclR; COG1414 627192003502 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192003503 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 627192003504 CoA-transferase family III; Region: CoA_transf_3; pfam02515 627192003505 salicylate hydroxylase; Provisional; Region: PRK08163 627192003506 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 627192003507 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 627192003508 Cupin domain; Region: Cupin_2; pfam07883 627192003509 Cupin domain; Region: Cupin_2; pfam07883 627192003510 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 627192003511 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192003512 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192003513 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 627192003514 N-terminal plug; other site 627192003515 ligand-binding site [chemical binding]; other site 627192003516 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 627192003517 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192003518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192003519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192003520 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 627192003521 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 627192003522 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 627192003523 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 627192003524 FAD binding domain; Region: FAD_binding_4; pfam01565 627192003525 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 627192003526 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192003527 putative substrate translocation pore; other site 627192003528 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 627192003529 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 627192003530 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 627192003531 FAD binding domain; Region: FAD_binding_4; pfam01565 627192003532 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192003533 choline dehydrogenase; Validated; Region: PRK02106 627192003534 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 627192003535 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 627192003536 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192003537 NAD(P) binding site [chemical binding]; other site 627192003538 catalytic residues [active] 627192003539 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 627192003540 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 627192003541 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 627192003542 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 627192003543 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 627192003544 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 627192003545 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; cl17355 627192003546 DNA binding site [nucleotide binding] 627192003547 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 627192003548 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 627192003549 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 627192003550 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 627192003551 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 627192003552 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 627192003553 active site 627192003554 metal binding site [ion binding]; metal-binding site 627192003555 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 627192003556 active site 627192003557 metal binding site [ion binding]; metal-binding site 627192003558 Phytase; Region: Phytase; cl17685 627192003559 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192003560 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 627192003561 N-terminal domain interface [polypeptide binding]; other site 627192003562 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 627192003563 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 627192003564 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 627192003565 hypothetical protein; Provisional; Region: PRK14636 627192003566 Sm and related proteins; Region: Sm_like; cl00259 627192003567 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 627192003568 putative oligomer interface [polypeptide binding]; other site 627192003569 putative RNA binding site [nucleotide binding]; other site 627192003570 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 627192003571 NusA N-terminal domain; Region: NusA_N; pfam08529 627192003572 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 627192003573 RNA binding site [nucleotide binding]; other site 627192003574 homodimer interface [polypeptide binding]; other site 627192003575 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 627192003576 G-X-X-G motif; other site 627192003577 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 627192003578 G-X-X-G motif; other site 627192003579 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 627192003580 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 627192003581 active site 1 [active] 627192003582 dimer interface [polypeptide binding]; other site 627192003583 hexamer interface [polypeptide binding]; other site 627192003584 active site 2 [active] 627192003585 hypothetical protein; Provisional; Region: PRK09190 627192003586 Protein of unknown function (DUF448); Region: DUF448; pfam04296 627192003587 putative RNA binding cleft [nucleotide binding]; other site 627192003588 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 627192003589 translation initiation factor IF-2; Region: IF-2; TIGR00487 627192003590 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 627192003591 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 627192003592 G1 box; other site 627192003593 putative GEF interaction site [polypeptide binding]; other site 627192003594 GTP/Mg2+ binding site [chemical binding]; other site 627192003595 Switch I region; other site 627192003596 G2 box; other site 627192003597 G3 box; other site 627192003598 Switch II region; other site 627192003599 G4 box; other site 627192003600 G5 box; other site 627192003601 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 627192003602 Translation-initiation factor 2; Region: IF-2; pfam11987 627192003603 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 627192003604 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 627192003605 thymidine kinase; Provisional; Region: PRK04296 627192003606 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 627192003607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192003608 Coenzyme A binding pocket [chemical binding]; other site 627192003609 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 627192003610 Acyltransferase family; Region: Acyl_transf_3; pfam01757 627192003611 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 627192003612 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 627192003613 RNA binding site [nucleotide binding]; other site 627192003614 active site 627192003615 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 627192003616 16S/18S rRNA binding site [nucleotide binding]; other site 627192003617 S13e-L30e interaction site [polypeptide binding]; other site 627192003618 25S rRNA binding site [nucleotide binding]; other site 627192003619 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 627192003620 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 627192003621 RNase E interface [polypeptide binding]; other site 627192003622 trimer interface [polypeptide binding]; other site 627192003623 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 627192003624 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 627192003625 RNase E interface [polypeptide binding]; other site 627192003626 trimer interface [polypeptide binding]; other site 627192003627 active site 627192003628 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 627192003629 putative nucleic acid binding region [nucleotide binding]; other site 627192003630 G-X-X-G motif; other site 627192003631 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 627192003632 RNA binding site [nucleotide binding]; other site 627192003633 domain interface; other site 627192003634 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 627192003635 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 627192003636 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 627192003637 Walker A/P-loop; other site 627192003638 ATP binding site [chemical binding]; other site 627192003639 Q-loop/lid; other site 627192003640 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 627192003641 ABC transporter signature motif; other site 627192003642 Walker B; other site 627192003643 D-loop; other site 627192003644 H-loop/switch region; other site 627192003645 Uncharacterized conserved protein [Function unknown]; Region: COG1359 627192003646 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 627192003647 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 627192003648 nucleotide binding pocket [chemical binding]; other site 627192003649 K-X-D-G motif; other site 627192003650 catalytic site [active] 627192003651 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 627192003652 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 627192003653 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 627192003654 Dimer interface [polypeptide binding]; other site 627192003655 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 627192003656 TPP-binding site [chemical binding]; other site 627192003657 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 627192003658 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 627192003659 PYR/PP interface [polypeptide binding]; other site 627192003660 dimer interface [polypeptide binding]; other site 627192003661 TPP binding site [chemical binding]; other site 627192003662 threonine dehydratase; Provisional; Region: PRK07334 627192003663 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 627192003664 tetramer interface [polypeptide binding]; other site 627192003665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192003666 catalytic residue [active] 627192003667 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 627192003668 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 627192003669 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 627192003670 putative metal binding site [ion binding]; other site 627192003671 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 627192003672 active site 627192003673 Zn binding site [ion binding]; other site 627192003674 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 627192003675 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 627192003676 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 627192003677 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 627192003678 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 627192003679 binding surface 627192003680 Tetratricopeptide repeat; Region: TPR_16; pfam13432 627192003681 TPR motif; other site 627192003682 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 627192003683 TPR motif; other site 627192003684 binding surface 627192003685 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 627192003686 binding surface 627192003687 TPR motif; other site 627192003688 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 627192003689 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 627192003690 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 627192003691 non-specific DNA binding site [nucleotide binding]; other site 627192003692 salt bridge; other site 627192003693 sequence-specific DNA binding site [nucleotide binding]; other site 627192003694 Cupin domain; Region: Cupin_2; pfam07883 627192003695 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 627192003696 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 627192003697 cofactor binding site; other site 627192003698 metal binding site [ion binding]; metal-binding site 627192003699 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 627192003700 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 627192003701 S-adenosylmethionine binding site [chemical binding]; other site 627192003702 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 627192003703 dimer interface [polypeptide binding]; other site 627192003704 putative CheW interface [polypeptide binding]; other site 627192003705 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 627192003706 Iron-sulfur protein interface; other site 627192003707 proximal quinone binding site [chemical binding]; other site 627192003708 SdhD (CybS) interface [polypeptide binding]; other site 627192003709 proximal heme binding site [chemical binding]; other site 627192003710 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 627192003711 putative SdhC subunit interface [polypeptide binding]; other site 627192003712 putative proximal heme binding site [chemical binding]; other site 627192003713 putative Iron-sulfur protein interface [polypeptide binding]; other site 627192003714 putative proximal quinone binding site; other site 627192003715 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 627192003716 L-aspartate oxidase; Provisional; Region: PRK06175 627192003717 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 627192003718 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 627192003719 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 627192003720 Surface antigen; Region: Bac_surface_Ag; pfam01103 627192003721 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 627192003722 Family of unknown function (DUF490); Region: DUF490; pfam04357 627192003723 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 627192003724 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 627192003725 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 627192003726 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192003727 NAD binding site [chemical binding]; other site 627192003728 catalytic residues [active] 627192003729 glutamine synthetase; Provisional; Region: glnA; PRK09469 627192003730 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 627192003731 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 627192003732 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 627192003733 Nitrogen regulatory protein P-II; Region: P-II; smart00938 627192003734 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 627192003735 active site 627192003736 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 627192003737 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 627192003738 putative MPT binding site; other site 627192003739 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 627192003740 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192003741 putative substrate translocation pore; other site 627192003742 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 627192003743 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 627192003744 substrate binding pocket [chemical binding]; other site 627192003745 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192003746 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003747 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003748 benzoate transport; Region: 2A0115; TIGR00895 627192003749 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 627192003750 putative substrate translocation pore; other site 627192003751 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003752 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003753 SnoaL-like domain; Region: SnoaL_3; pfam13474 627192003754 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003755 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 627192003756 classical (c) SDRs; Region: SDR_c; cd05233 627192003757 NAD(P) binding site [chemical binding]; other site 627192003758 active site 627192003759 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 627192003760 TadE-like protein; Region: TadE; pfam07811 627192003761 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 627192003762 TadE-like protein; Region: TadE; pfam07811 627192003763 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 627192003764 succinic semialdehyde dehydrogenase; Region: PLN02278 627192003765 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 627192003766 tetramerization interface [polypeptide binding]; other site 627192003767 NAD(P) binding site [chemical binding]; other site 627192003768 catalytic residues [active] 627192003769 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 627192003770 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 627192003771 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003772 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003773 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003774 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 627192003775 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 627192003776 Trp docking motif [polypeptide binding]; other site 627192003777 cytochrome domain interface [polypeptide binding]; other site 627192003778 active site 627192003779 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 627192003780 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192003781 SdiA-regulated; Region: SdiA-regulated; cd09971 627192003782 SdiA-regulated; Region: SdiA-regulated; pfam06977 627192003783 putative active site [active] 627192003784 PEP-CTERM motif; Region: VPEP; pfam07589 627192003785 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192003786 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 627192003787 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 627192003788 Trp docking motif [polypeptide binding]; other site 627192003789 cytochrome domain interface [polypeptide binding]; other site 627192003790 active site 627192003791 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 627192003792 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192003793 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 627192003794 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 627192003795 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 627192003796 Walker A/P-loop; other site 627192003797 ATP binding site [chemical binding]; other site 627192003798 Q-loop/lid; other site 627192003799 ABC transporter signature motif; other site 627192003800 Walker B; other site 627192003801 D-loop; other site 627192003802 H-loop/switch region; other site 627192003803 Predicted membrane protein [Function unknown]; Region: COG2259 627192003804 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 627192003805 putative FMN binding site [chemical binding]; other site 627192003806 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 627192003807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192003808 metal binding site [ion binding]; metal-binding site 627192003809 active site 627192003810 I-site; other site 627192003811 Pirin-related protein [General function prediction only]; Region: COG1741 627192003812 Pirin; Region: Pirin; pfam02678 627192003813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192003814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192003815 LysR substrate binding domain; Region: LysR_substrate; pfam03466 627192003816 dimerization interface [polypeptide binding]; other site 627192003817 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 627192003818 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 627192003819 metal binding triad; other site 627192003820 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 627192003821 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 627192003822 metal binding triad; other site 627192003823 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 627192003824 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 627192003825 catalytic triad [active] 627192003826 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 627192003827 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 627192003828 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192003829 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192003830 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 627192003831 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 627192003832 substrate binding site [chemical binding]; other site 627192003833 THF binding site; other site 627192003834 zinc-binding site [ion binding]; other site 627192003835 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 627192003836 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 627192003837 putative substrate translocation pore; other site 627192003838 benzoate transport; Region: 2A0115; TIGR00895 627192003839 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 627192003840 putative substrate translocation pore; other site 627192003841 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 627192003842 active site 627192003843 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003844 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 627192003845 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 627192003846 active site 627192003847 catalytic tetrad [active] 627192003848 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 627192003849 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 627192003850 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 627192003851 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 627192003852 active site 627192003853 Fe(II) binding site [ion binding]; other site 627192003854 dimer interface [polypeptide binding]; other site 627192003855 tetramer interface [polypeptide binding]; other site 627192003856 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 627192003857 dimer interface [polypeptide binding]; other site 627192003858 tetramer interface [polypeptide binding]; other site 627192003859 active site 627192003860 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192003861 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 627192003862 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 627192003863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192003864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192003865 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 627192003866 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 627192003867 dimerization interface [polypeptide binding]; other site 627192003868 hypothetical protein; Provisional; Region: PRK09262 627192003869 hypothetical protein; Validated; Region: PRK06201 627192003870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 627192003871 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192003872 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 627192003873 active site 627192003874 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 627192003875 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192003876 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 627192003877 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 627192003878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192003879 NAD(P) binding site [chemical binding]; other site 627192003880 active site 627192003881 Predicted transcriptional regulators [Transcription]; Region: COG1733 627192003882 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 627192003883 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 627192003884 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 627192003885 active site 627192003886 Zn binding site [ion binding]; other site 627192003887 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 627192003888 hypothetical protein; Provisional; Region: PRK06194 627192003889 classical (c) SDRs; Region: SDR_c; cd05233 627192003890 NAD(P) binding site [chemical binding]; other site 627192003891 active site 627192003892 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192003893 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192003894 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192003895 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 627192003896 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 627192003897 classical (c) SDRs; Region: SDR_c; cd05233 627192003898 NAD(P) binding site [chemical binding]; other site 627192003899 active site 627192003900 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 627192003901 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 627192003902 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 627192003903 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 627192003904 putative NAD(P) binding site [chemical binding]; other site 627192003905 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 627192003906 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192003907 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 627192003908 dimer interface [polypeptide binding]; other site 627192003909 substrate binding site [chemical binding]; other site 627192003910 metal binding site [ion binding]; metal-binding site 627192003911 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 627192003912 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 627192003913 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 627192003914 FAD binding site [chemical binding]; other site 627192003915 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 627192003916 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 627192003917 Potassium binding sites [ion binding]; other site 627192003918 Cesium cation binding sites [ion binding]; other site 627192003919 Phosphotransferase enzyme family; Region: APH; pfam01636 627192003920 SnoaL-like domain; Region: SnoaL_3; pfam13474 627192003921 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192003922 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 627192003923 D-galactonate transporter; Region: 2A0114; TIGR00893 627192003924 putative substrate translocation pore; other site 627192003925 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192003926 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 627192003927 tetramerization interface [polypeptide binding]; other site 627192003928 NAD(P) binding site [chemical binding]; other site 627192003929 catalytic residues [active] 627192003930 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192003931 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 627192003932 putative substrate translocation pore; other site 627192003933 choline dehydrogenase; Validated; Region: PRK02106 627192003934 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 627192003935 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 627192003936 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 627192003937 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 627192003938 hypothetical protein; Provisional; Region: PRK00872 627192003939 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 627192003940 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192003941 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192003942 MarR family; Region: MarR_2; pfam12802 627192003943 benzoate transport; Region: 2A0115; TIGR00895 627192003944 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 627192003945 putative substrate translocation pore; other site 627192003946 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 627192003947 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 627192003948 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 627192003949 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 627192003950 catalytic loop [active] 627192003951 iron binding site [ion binding]; other site 627192003952 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 627192003953 4Fe-4S binding domain; Region: Fer4; pfam00037 627192003954 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 627192003955 [4Fe-4S] binding site [ion binding]; other site 627192003956 molybdopterin cofactor binding site; other site 627192003957 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 627192003958 molybdopterin cofactor binding site; other site 627192003959 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 627192003960 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 627192003961 GTP binding site; other site 627192003962 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 627192003963 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 627192003964 SLBB domain; Region: SLBB; pfam10531 627192003965 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 627192003966 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 627192003967 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 627192003968 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 627192003969 putative binding surface; other site 627192003970 active site 627192003971 SirA-like protein; Region: SirA; pfam01206 627192003972 GTP-binding protein Der; Reviewed; Region: PRK00093 627192003973 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 627192003974 G1 box; other site 627192003975 GTP/Mg2+ binding site [chemical binding]; other site 627192003976 Switch I region; other site 627192003977 G2 box; other site 627192003978 Switch II region; other site 627192003979 G3 box; other site 627192003980 G4 box; other site 627192003981 G5 box; other site 627192003982 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 627192003983 G1 box; other site 627192003984 GTP/Mg2+ binding site [chemical binding]; other site 627192003985 Switch I region; other site 627192003986 G2 box; other site 627192003987 G3 box; other site 627192003988 Switch II region; other site 627192003989 G4 box; other site 627192003990 G5 box; other site 627192003991 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 627192003992 Trp docking motif [polypeptide binding]; other site 627192003993 active site 627192003994 PQQ-like domain; Region: PQQ_2; pfam13360 627192003995 PQQ-like domain; Region: PQQ_2; pfam13360 627192003996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 627192003997 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 627192003998 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 627192003999 oligomerization interface [polypeptide binding]; other site 627192004000 active site 627192004001 metal binding site [ion binding]; metal-binding site 627192004002 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 627192004003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192004004 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 627192004005 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 627192004006 DNA binding residues [nucleotide binding] 627192004007 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 627192004008 FHIPEP family; Region: FHIPEP; pfam00771 627192004009 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 627192004010 N-acetyl-D-glucosamine binding site [chemical binding]; other site 627192004011 catalytic residue [active] 627192004012 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 627192004013 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 627192004014 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 627192004015 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 627192004016 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 627192004017 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 627192004018 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 627192004019 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 627192004020 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 627192004021 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 627192004022 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 627192004023 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 627192004024 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 627192004025 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 627192004026 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 627192004027 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 627192004028 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 627192004029 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 627192004030 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 627192004031 Flagellar L-ring protein; Region: FlgH; pfam02107 627192004032 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 627192004033 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 627192004034 Rod binding protein; Region: Rod-binding; cl01626 627192004035 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 627192004036 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 627192004037 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 627192004038 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 627192004039 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 627192004040 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 627192004041 flagellar motor protein MotA; Validated; Region: PRK09110 627192004042 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 627192004043 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 627192004044 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 627192004045 ligand binding site [chemical binding]; other site 627192004046 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 627192004047 dimerization interface [polypeptide binding]; other site 627192004048 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 627192004049 dimer interface [polypeptide binding]; other site 627192004050 phosphorylation site [posttranslational modification] 627192004051 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 627192004052 ATP binding site [chemical binding]; other site 627192004053 Mg2+ binding site [ion binding]; other site 627192004054 G-X-G motif; other site 627192004055 osmolarity response regulator; Provisional; Region: ompR; PRK09468 627192004056 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 627192004057 active site 627192004058 phosphorylation site [posttranslational modification] 627192004059 intermolecular recognition site; other site 627192004060 dimerization interface [polypeptide binding]; other site 627192004061 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 627192004062 DNA binding site [nucleotide binding] 627192004063 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 627192004064 EF-hand domain pair; Region: EF_hand_5; pfam13499 627192004065 Ca2+ binding site [ion binding]; other site 627192004066 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 627192004067 Ca2+ binding site [ion binding]; other site 627192004068 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 627192004069 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 627192004070 Amidohydrolase; Region: Amidohydro_4; pfam13147 627192004071 active site 627192004072 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 627192004073 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 627192004074 ATP binding site [chemical binding]; other site 627192004075 active site 627192004076 substrate binding site [chemical binding]; other site 627192004077 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 627192004078 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 627192004079 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 627192004080 DNA binding residues [nucleotide binding] 627192004081 dimer interface [polypeptide binding]; other site 627192004082 mercury binding site [ion binding]; other site 627192004083 PEP-CTERM motif; Region: VPEP; pfam07589 627192004084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192004085 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 627192004086 ATP binding site [chemical binding]; other site 627192004087 Mg2+ binding site [ion binding]; other site 627192004088 G-X-G motif; other site 627192004089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192004090 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 627192004091 active site 627192004092 phosphorylation site [posttranslational modification] 627192004093 intermolecular recognition site; other site 627192004094 dimerization interface [polypeptide binding]; other site 627192004095 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 627192004096 DNA binding site [nucleotide binding] 627192004097 Uncharacterized conserved protein [Function unknown]; Region: COG2968 627192004098 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 627192004099 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 627192004100 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192004101 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192004102 Uncharacterized conserved protein [Function unknown]; Region: COG1359 627192004103 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 627192004104 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 627192004105 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 627192004106 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192004107 catalytic residue [active] 627192004108 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 627192004109 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 627192004110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192004111 catalytic residue [active] 627192004112 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 627192004113 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 627192004114 catalytic loop [active] 627192004115 iron binding site [ion binding]; other site 627192004116 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 627192004117 putative substrate translocation pore; other site 627192004118 EamA-like transporter family; Region: EamA; pfam00892 627192004119 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 627192004120 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 627192004121 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 627192004122 Walker A motif; other site 627192004123 ATP binding site [chemical binding]; other site 627192004124 Walker B motif; other site 627192004125 arginine finger; other site 627192004126 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 627192004127 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 627192004128 hypothetical protein; Validated; Region: PRK00153 627192004129 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 627192004130 Found in ATP-dependent protease La (LON); Region: LON; smart00464 627192004131 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 627192004132 Walker A motif; other site 627192004133 ATP binding site [chemical binding]; other site 627192004134 Walker B motif; other site 627192004135 arginine finger; other site 627192004136 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 627192004137 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 627192004138 IHF dimer interface [polypeptide binding]; other site 627192004139 IHF - DNA interface [nucleotide binding]; other site 627192004140 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 627192004141 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 627192004142 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 627192004143 NAD binding site [chemical binding]; other site 627192004144 Phe binding site; other site 627192004145 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 627192004146 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 627192004147 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 627192004148 DNA binding residues [nucleotide binding] 627192004149 putative dimer interface [polypeptide binding]; other site 627192004150 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 627192004151 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 627192004152 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 627192004153 active site 627192004154 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 627192004155 hypothetical protein; Provisional; Region: PRK08204 627192004156 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 627192004157 active site 627192004158 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 627192004159 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 627192004160 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 627192004161 dimer interface [polypeptide binding]; other site 627192004162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192004163 catalytic residue [active] 627192004164 enterobactin exporter EntS; Provisional; Region: PRK10489 627192004165 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 627192004166 putative substrate translocation pore; other site 627192004167 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192004168 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 627192004169 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 627192004170 Family description; Region: UvrD_C_2; pfam13538 627192004171 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 627192004172 Methyltransferase domain; Region: Methyltransf_26; pfam13659 627192004173 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 627192004174 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 627192004175 S-adenosylmethionine binding site [chemical binding]; other site 627192004176 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 627192004177 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 627192004178 RNA binding surface [nucleotide binding]; other site 627192004179 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 627192004180 active site 627192004181 Response regulator receiver domain; Region: Response_reg; pfam00072 627192004182 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 627192004183 active site 627192004184 phosphorylation site [posttranslational modification] 627192004185 intermolecular recognition site; other site 627192004186 dimerization interface [polypeptide binding]; other site 627192004187 muropeptide transporter; Validated; Region: ampG; cl17669 627192004188 muropeptide transporter; Reviewed; Region: ampG; PRK11902 627192004189 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 627192004190 Beta-lactamase; Region: Beta-lactamase; pfam00144 627192004191 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 627192004192 binding surface 627192004193 Tetratricopeptide repeat; Region: TPR_16; pfam13432 627192004194 TPR motif; other site 627192004195 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 627192004196 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 627192004197 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 627192004198 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 627192004199 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 627192004200 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 627192004201 substrate binding site [chemical binding]; other site 627192004202 active site 627192004203 catalytic residues [active] 627192004204 heterodimer interface [polypeptide binding]; other site 627192004205 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 627192004206 putative active site [active] 627192004207 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 627192004208 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 627192004209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192004210 catalytic residue [active] 627192004211 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 627192004212 active site 627192004213 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 627192004214 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 627192004215 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 627192004216 type II secretion system protein D; Region: type_II_gspD; TIGR02517 627192004217 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 627192004218 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 627192004219 type II secretion system protein E; Region: type_II_gspE; TIGR02533 627192004220 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 627192004221 Walker A motif; other site 627192004222 ATP binding site [chemical binding]; other site 627192004223 Walker B motif; other site 627192004224 type II secretion system protein F; Region: GspF; TIGR02120 627192004225 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 627192004226 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 627192004227 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 627192004228 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 627192004229 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 627192004230 type II secretion system protein I; Region: gspI; TIGR01707 627192004231 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 627192004232 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 627192004233 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 627192004234 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 627192004235 type II secretion system protein J; Region: gspJ; TIGR01711 627192004236 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 627192004237 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 627192004238 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 627192004239 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 627192004240 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 627192004241 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 627192004242 thioredoxin 2; Provisional; Region: PRK10996 627192004243 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 627192004244 catalytic residues [active] 627192004245 peroxiredoxin; Provisional; Region: PRK13189 627192004246 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 627192004247 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 627192004248 dimerization interface [polypeptide binding]; other site 627192004249 putative DNA binding site [nucleotide binding]; other site 627192004250 putative Zn2+ binding site [ion binding]; other site 627192004251 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 627192004252 PAS fold; Region: PAS_3; pfam08447 627192004253 putative active site [active] 627192004254 heme pocket [chemical binding]; other site 627192004255 PAS fold; Region: PAS_3; pfam08447 627192004256 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192004257 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 627192004258 dimer interface [polypeptide binding]; other site 627192004259 phosphorylation site [posttranslational modification] 627192004260 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 627192004261 ATP binding site [chemical binding]; other site 627192004262 Mg2+ binding site [ion binding]; other site 627192004263 G-X-G motif; other site 627192004264 Response regulator receiver domain; Region: Response_reg; pfam00072 627192004265 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 627192004266 active site 627192004267 phosphorylation site [posttranslational modification] 627192004268 intermolecular recognition site; other site 627192004269 dimerization interface [polypeptide binding]; other site 627192004270 Chemotaxis phosphatase CheX; Region: CheX; cl15816 627192004271 Chemotaxis phosphatase CheX; Region: CheX; cl15816 627192004272 Response regulator receiver domain; Region: Response_reg; pfam00072 627192004273 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 627192004274 active site 627192004275 phosphorylation site [posttranslational modification] 627192004276 intermolecular recognition site; other site 627192004277 dimerization interface [polypeptide binding]; other site 627192004278 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 627192004279 putative binding surface; other site 627192004280 active site 627192004281 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 627192004282 ATP binding site [chemical binding]; other site 627192004283 Mg2+ binding site [ion binding]; other site 627192004284 G-X-G motif; other site 627192004285 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 627192004286 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 627192004287 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 627192004288 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 627192004289 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 627192004290 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 627192004291 active site 627192004292 phosphorylation site [posttranslational modification] 627192004293 intermolecular recognition site; other site 627192004294 CheB methylesterase; Region: CheB_methylest; pfam01339 627192004295 CheW-like domain; Region: CheW; pfam01584 627192004296 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 627192004297 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 627192004298 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 627192004299 dimer interface [polypeptide binding]; other site 627192004300 putative CheW interface [polypeptide binding]; other site 627192004301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 627192004302 dimer interface [polypeptide binding]; other site 627192004303 putative CheW interface [polypeptide binding]; other site 627192004304 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 627192004305 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192004306 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 627192004307 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 627192004308 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 627192004309 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 627192004310 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 627192004311 Multisubunit Na+/H+ antiporter, MnhC subunit [Inorganic ion transport and metabolism]; Region: MnhC; COG1006 627192004312 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 627192004313 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 627192004314 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 627192004315 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 627192004316 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192004317 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192004318 short chain dehydrogenase; Provisional; Region: PRK06180 627192004319 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 627192004320 NADP binding site [chemical binding]; other site 627192004321 active site 627192004322 steroid binding site; other site 627192004323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192004324 HWE histidine kinase; Region: HWE_HK; cl06527 627192004325 Uncharacterized conserved protein [Function unknown]; Region: COG2850 627192004326 Cupin-like domain; Region: Cupin_8; pfam13621 627192004327 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 627192004328 pseudouridine synthase; Region: TIGR00093 627192004329 active site 627192004330 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 627192004331 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192004332 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192004333 ABC transporter; Region: ABC_tran_2; pfam12848 627192004334 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192004335 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 627192004336 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 627192004337 Walker A/P-loop; other site 627192004338 ATP binding site [chemical binding]; other site 627192004339 Q-loop/lid; other site 627192004340 ABC transporter signature motif; other site 627192004341 Walker B; other site 627192004342 D-loop; other site 627192004343 H-loop/switch region; other site 627192004344 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 627192004345 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 627192004346 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 627192004347 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 627192004348 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 627192004349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192004350 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 627192004351 dimerization interface [polypeptide binding]; other site 627192004352 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 627192004353 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 627192004354 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 627192004355 active site 627192004356 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 627192004357 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 627192004358 active site 627192004359 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 627192004360 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 627192004361 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 627192004362 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192004363 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 627192004364 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 627192004365 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192004366 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 627192004367 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 627192004368 active site 627192004369 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 627192004370 D-aminoacylase, C-terminal region; Region: D-aminoacyl_C; pfam07908 627192004371 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 627192004372 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 627192004373 active site 627192004374 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 627192004375 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 627192004376 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 627192004377 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 627192004378 NAD binding site [chemical binding]; other site 627192004379 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 627192004380 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192004381 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 627192004382 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192004383 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 627192004384 intersubunit interface [polypeptide binding]; other site 627192004385 active site 627192004386 Zn2+ binding site [ion binding]; other site 627192004387 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 627192004388 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192004389 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 627192004390 N-terminal plug; other site 627192004391 ligand-binding site [chemical binding]; other site 627192004392 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 627192004393 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 627192004394 DNA binding residues [nucleotide binding] 627192004395 dimerization interface [polypeptide binding]; other site 627192004396 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 627192004397 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 627192004398 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 627192004399 DNA binding residues [nucleotide binding] 627192004400 dimerization interface [polypeptide binding]; other site 627192004401 benzoate transport; Region: 2A0115; TIGR00895 627192004402 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 627192004403 putative substrate translocation pore; other site 627192004404 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 627192004405 DHH family; Region: DHH; pfam01368 627192004406 DHHA1 domain; Region: DHHA1; pfam02272 627192004407 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 627192004408 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 627192004409 Walker A/P-loop; other site 627192004410 ATP binding site [chemical binding]; other site 627192004411 Q-loop/lid; other site 627192004412 ABC transporter signature motif; other site 627192004413 Walker B; other site 627192004414 D-loop; other site 627192004415 H-loop/switch region; other site 627192004416 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 627192004417 ABC-2 type transporter; Region: ABC2_membrane; cl17235 627192004418 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 627192004419 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 627192004420 putative active site [active] 627192004421 homoserine dehydrogenase; Provisional; Region: PRK06349 627192004422 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 627192004423 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 627192004424 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 627192004425 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 627192004426 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 627192004427 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 627192004428 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 627192004429 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 627192004430 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 627192004431 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 627192004432 PilZ domain; Region: PilZ; pfam07238 627192004433 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 627192004434 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 627192004435 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192004436 Walker A/P-loop; other site 627192004437 ATP binding site [chemical binding]; other site 627192004438 Q-loop/lid; other site 627192004439 ABC transporter signature motif; other site 627192004440 Walker B; other site 627192004441 D-loop; other site 627192004442 H-loop/switch region; other site 627192004443 RF-1 domain; Region: RF-1; cl17422 627192004444 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 627192004445 hypothetical protein; Reviewed; Region: PRK09588 627192004446 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 627192004447 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 627192004448 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 627192004449 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 627192004450 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 627192004451 active site 627192004452 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 627192004453 Mechanosensitive ion channel; Region: MS_channel; pfam00924 627192004454 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 627192004455 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 627192004456 S-adenosylmethionine binding site [chemical binding]; other site 627192004457 aspartate kinase; Reviewed; Region: PRK06635 627192004458 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 627192004459 putative nucleotide binding site [chemical binding]; other site 627192004460 putative catalytic residues [active] 627192004461 putative Mg ion binding site [ion binding]; other site 627192004462 putative aspartate binding site [chemical binding]; other site 627192004463 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 627192004464 putative allosteric regulatory site; other site 627192004465 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 627192004466 putative allosteric regulatory residue; other site 627192004467 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 627192004468 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 627192004469 FMN binding site [chemical binding]; other site 627192004470 substrate binding site [chemical binding]; other site 627192004471 putative catalytic residue [active] 627192004472 PAS fold; Region: PAS_7; pfam12860 627192004473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192004474 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 627192004475 dimer interface [polypeptide binding]; other site 627192004476 phosphorylation site [posttranslational modification] 627192004477 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 627192004478 ATP binding site [chemical binding]; other site 627192004479 Mg2+ binding site [ion binding]; other site 627192004480 G-X-G motif; other site 627192004481 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 627192004482 Phosphotransferase enzyme family; Region: APH; pfam01636 627192004483 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 627192004484 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 627192004485 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 627192004486 Substrate binding site; other site 627192004487 metal-binding site 627192004488 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 627192004489 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 627192004490 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 627192004491 Family description; Region: UvrD_C_2; pfam13538 627192004492 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 627192004493 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 627192004494 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 627192004495 catalytic residues [active] 627192004496 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 627192004497 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 627192004498 active site 627192004499 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 627192004500 heterotetramer interface [polypeptide binding]; other site 627192004501 active site pocket [active] 627192004502 cleavage site 627192004503 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 627192004504 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 627192004505 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 627192004506 SEC-C motif; Region: SEC-C; pfam02810 627192004507 metabolite-proton symporter; Region: 2A0106; TIGR00883 627192004508 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 627192004509 putative substrate translocation pore; other site 627192004510 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 627192004511 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 627192004512 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 627192004513 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 627192004514 dimerization domain swap beta strand [polypeptide binding]; other site 627192004515 regulatory protein interface [polypeptide binding]; other site 627192004516 active site 627192004517 regulatory phosphorylation site [posttranslational modification]; other site 627192004518 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 627192004519 active pocket/dimerization site; other site 627192004520 active site 627192004521 phosphorylation site [posttranslational modification] 627192004522 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 627192004523 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 627192004524 Hpr binding site; other site 627192004525 active site 627192004526 homohexamer subunit interaction site [polypeptide binding]; other site 627192004527 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 627192004528 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 627192004529 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 627192004530 dimer interface [polypeptide binding]; other site 627192004531 phosphorylation site [posttranslational modification] 627192004532 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 627192004533 ATP binding site [chemical binding]; other site 627192004534 Mg2+ binding site [ion binding]; other site 627192004535 G-X-G motif; other site 627192004536 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192004537 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 627192004538 active site 627192004539 phosphorylation site [posttranslational modification] 627192004540 intermolecular recognition site; other site 627192004541 dimerization interface [polypeptide binding]; other site 627192004542 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 627192004543 DNA binding site [nucleotide binding] 627192004544 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 627192004545 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_ATP; cd00484 627192004546 active site 627192004547 substrate-binding site [chemical binding]; other site 627192004548 metal-binding site [ion binding] 627192004549 ATP binding site [chemical binding]; other site 627192004550 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 627192004551 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 627192004552 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 627192004553 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 627192004554 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 627192004555 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 627192004556 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 627192004557 PA/protease or protease-like domain interface [polypeptide binding]; other site 627192004558 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 627192004559 metal binding site [ion binding]; metal-binding site 627192004560 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 627192004561 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 627192004562 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 627192004563 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 627192004564 active site 627192004565 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 627192004566 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 627192004567 TPR repeat; Region: TPR_11; pfam13414 627192004568 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 627192004569 binding surface 627192004570 TPR motif; other site 627192004571 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 627192004572 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 627192004573 S-adenosylmethionine binding site [chemical binding]; other site 627192004574 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 627192004575 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 627192004576 SurA N-terminal domain; Region: SurA_N; pfam09312 627192004577 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 627192004578 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 627192004579 OstA-like protein; Region: OstA; cl00844 627192004580 Organic solvent tolerance protein; Region: OstA_C; pfam04453 627192004581 multifunctional aminopeptidase A; Provisional; Region: PRK00913 627192004582 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 627192004583 interface (dimer of trimers) [polypeptide binding]; other site 627192004584 Substrate-binding/catalytic site; other site 627192004585 Zn-binding sites [ion binding]; other site 627192004586 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 627192004587 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 627192004588 GIY-YIG motif/motif A; other site 627192004589 active site 627192004590 catalytic site [active] 627192004591 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 627192004592 active site 627192004593 multimer interface [polypeptide binding]; other site 627192004594 chorismate mutase; Provisional; Region: PRK09239 627192004595 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 627192004596 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 627192004597 substrate binding pocket [chemical binding]; other site 627192004598 chain length determination region; other site 627192004599 substrate-Mg2+ binding site; other site 627192004600 catalytic residues [active] 627192004601 aspartate-rich region 1; other site 627192004602 active site lid residues [active] 627192004603 aspartate-rich region 2; other site 627192004604 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 627192004605 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 627192004606 ATP binding site [chemical binding]; other site 627192004607 putative Mg++ binding site [ion binding]; other site 627192004608 helicase superfamily c-terminal domain; Region: HELICc; smart00490 627192004609 Helicase associated domain (HA2); Region: HA2; pfam04408 627192004610 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 627192004611 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 627192004612 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 627192004613 active site 627192004614 substrate binding site [chemical binding]; other site 627192004615 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 627192004616 cosubstrate binding site; other site 627192004617 catalytic site [active] 627192004618 Protein of unknown function (DUF419); Region: DUF419; pfam04237 627192004619 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 627192004620 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 627192004621 dimerization interface [polypeptide binding]; other site 627192004622 putative ATP binding site [chemical binding]; other site 627192004623 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 627192004624 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 627192004625 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 627192004626 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 627192004627 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 627192004628 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 627192004629 putative domain interface [polypeptide binding]; other site 627192004630 putative active site [active] 627192004631 catalytic site [active] 627192004632 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 627192004633 putative domain interface [polypeptide binding]; other site 627192004634 putative active site [active] 627192004635 catalytic site [active] 627192004636 exopolyphosphatase; Region: exo_poly_only; TIGR03706 627192004637 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 627192004638 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 627192004639 ribonuclease D; Region: rnd; TIGR01388 627192004640 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 627192004641 catalytic site [active] 627192004642 putative active site [active] 627192004643 putative substrate binding site [chemical binding]; other site 627192004644 HRDC domain; Region: HRDC; pfam00570 627192004645 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 627192004646 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 627192004647 dimer interface [polypeptide binding]; other site 627192004648 anticodon binding site; other site 627192004649 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 627192004650 homodimer interface [polypeptide binding]; other site 627192004651 motif 1; other site 627192004652 active site 627192004653 motif 2; other site 627192004654 GAD domain; Region: GAD; pfam02938 627192004655 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 627192004656 active site 627192004657 motif 3; other site 627192004658 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 627192004659 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 627192004660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192004661 Coenzyme A binding pocket [chemical binding]; other site 627192004662 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 627192004663 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 627192004664 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 627192004665 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 627192004666 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 627192004667 N-acetyl-D-glucosamine binding site [chemical binding]; other site 627192004668 catalytic residue [active] 627192004669 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 627192004670 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 627192004671 dimer interface [polypeptide binding]; other site 627192004672 active site 627192004673 catalytic residue [active] 627192004674 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 627192004675 SmpB-tmRNA interface; other site 627192004676 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 627192004677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192004678 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 627192004679 dimer interface [polypeptide binding]; other site 627192004680 phosphorylation site [posttranslational modification] 627192004681 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 627192004682 ATP binding site [chemical binding]; other site 627192004683 Mg2+ binding site [ion binding]; other site 627192004684 G-X-G motif; other site 627192004685 Response regulator receiver domain; Region: Response_reg; pfam00072 627192004686 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 627192004687 active site 627192004688 phosphorylation site [posttranslational modification] 627192004689 intermolecular recognition site; other site 627192004690 dimerization interface [polypeptide binding]; other site 627192004691 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 627192004692 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 627192004693 recombinase A; Provisional; Region: recA; PRK09354 627192004694 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 627192004695 hexamer interface [polypeptide binding]; other site 627192004696 Walker A motif; other site 627192004697 ATP binding site [chemical binding]; other site 627192004698 Walker B motif; other site 627192004699 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 627192004700 Cupin domain; Region: Cupin_2; cl17218 627192004701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192004702 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192004703 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192004704 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192004705 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192004706 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 627192004707 N-terminal plug; other site 627192004708 ligand-binding site [chemical binding]; other site 627192004709 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 627192004710 catalytic site [active] 627192004711 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192004712 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192004713 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192004714 Amidohydrolase; Region: Amidohydro_4; pfam13147 627192004715 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 627192004716 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 627192004717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192004718 NAD(P) binding site [chemical binding]; other site 627192004719 active site 627192004720 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 627192004721 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 627192004722 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192004723 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 627192004724 potential frameshift: common BLAST hit: gi|87199072|ref|YP_496329.1| L-lactate dehydrogenase 627192004725 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 627192004726 active site 627192004727 substrate binding site [chemical binding]; other site 627192004728 putative catalytic residues [active] 627192004729 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 627192004730 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 627192004731 phosphate binding site [ion binding]; other site 627192004732 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192004733 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192004734 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 627192004735 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 627192004736 motif 1; other site 627192004737 active site 627192004738 motif 2; other site 627192004739 motif 3; other site 627192004740 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 627192004741 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 627192004742 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 627192004743 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 627192004744 TrkA-N domain; Region: TrkA_N; pfam02254 627192004745 isocitrate dehydrogenase; Validated; Region: PRK08299 627192004746 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 627192004747 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 627192004748 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 627192004749 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 627192004750 rRNA interaction site [nucleotide binding]; other site 627192004751 S8 interaction site; other site 627192004752 putative laminin-1 binding site; other site 627192004753 elongation factor Ts; Provisional; Region: tsf; PRK09377 627192004754 UBA/TS-N domain; Region: UBA; pfam00627 627192004755 Elongation factor TS; Region: EF_TS; pfam00889 627192004756 Elongation factor TS; Region: EF_TS; pfam00889 627192004757 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 627192004758 putative nucleotide binding site [chemical binding]; other site 627192004759 uridine monophosphate binding site [chemical binding]; other site 627192004760 homohexameric interface [polypeptide binding]; other site 627192004761 ribosome recycling factor; Reviewed; Region: frr; PRK00083 627192004762 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 627192004763 hinge region; other site 627192004764 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 627192004765 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 627192004766 catalytic residue [active] 627192004767 putative FPP diphosphate binding site; other site 627192004768 putative FPP binding hydrophobic cleft; other site 627192004769 dimer interface [polypeptide binding]; other site 627192004770 putative IPP diphosphate binding site; other site 627192004771 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 627192004772 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 627192004773 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 627192004774 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 627192004775 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 627192004776 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 627192004777 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 627192004778 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 627192004779 active site 627192004780 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 627192004781 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 627192004782 putative substrate binding region [chemical binding]; other site 627192004783 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 627192004784 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 627192004785 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 627192004786 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 627192004787 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 627192004788 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 627192004789 Surface antigen; Region: Bac_surface_Ag; pfam01103 627192004790 Surface antigen; Region: Bac_surface_Ag; pfam01103 627192004791 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 627192004792 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 627192004793 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 627192004794 PEP-CTERM motif; Region: VPEP; pfam07589 627192004795 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 627192004796 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 627192004797 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 627192004798 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 627192004799 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 627192004800 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 627192004801 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 627192004802 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 627192004803 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 627192004804 DNA binding site [nucleotide binding] 627192004805 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 627192004806 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 627192004807 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 627192004808 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 627192004809 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 627192004810 RPB12 interaction site [polypeptide binding]; other site 627192004811 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 627192004812 RPB11 interaction site [polypeptide binding]; other site 627192004813 RPB12 interaction site [polypeptide binding]; other site 627192004814 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 627192004815 RPB3 interaction site [polypeptide binding]; other site 627192004816 RPB1 interaction site [polypeptide binding]; other site 627192004817 RPB11 interaction site [polypeptide binding]; other site 627192004818 RPB10 interaction site [polypeptide binding]; other site 627192004819 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 627192004820 E-class dimer interface [polypeptide binding]; other site 627192004821 P-class dimer interface [polypeptide binding]; other site 627192004822 active site 627192004823 Cu2+ binding site [ion binding]; other site 627192004824 Zn2+ binding site [ion binding]; other site 627192004825 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 627192004826 benzoate transport; Region: 2A0115; TIGR00895 627192004827 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 627192004828 putative substrate translocation pore; other site 627192004829 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 627192004830 putative substrate translocation pore; other site 627192004831 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 627192004832 substrate binding pocket [chemical binding]; other site 627192004833 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 627192004834 active site 627192004835 iron coordination sites [ion binding]; other site 627192004836 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 627192004837 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 627192004838 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 627192004839 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 627192004840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 627192004841 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 627192004842 aspartate racemase; Region: asp_race; TIGR00035 627192004843 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 627192004844 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 627192004845 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 627192004846 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 627192004847 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 627192004848 ligand binding site [chemical binding]; other site 627192004849 homodimer interface [polypeptide binding]; other site 627192004850 NAD(P) binding site [chemical binding]; other site 627192004851 trimer interface B [polypeptide binding]; other site 627192004852 trimer interface A [polypeptide binding]; other site 627192004853 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 627192004854 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 627192004855 active site 627192004856 phosphorylation site [posttranslational modification] 627192004857 intermolecular recognition site; other site 627192004858 dimerization interface [polypeptide binding]; other site 627192004859 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 627192004860 Walker A motif; other site 627192004861 ATP binding site [chemical binding]; other site 627192004862 Walker B motif; other site 627192004863 arginine finger; other site 627192004864 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 627192004865 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 627192004866 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 627192004867 ATP binding site [chemical binding]; other site 627192004868 Mg2+ binding site [ion binding]; other site 627192004869 G-X-G motif; other site 627192004870 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 627192004871 anchoring element; other site 627192004872 dimer interface [polypeptide binding]; other site 627192004873 ATP binding site [chemical binding]; other site 627192004874 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 627192004875 active site 627192004876 putative metal-binding site [ion binding]; other site 627192004877 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 627192004878 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 627192004879 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 627192004880 GcrA cell cycle regulator; Region: GcrA; cl11564 627192004881 ABC-2 type transporter; Region: ABC2_membrane; cl17235 627192004882 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 627192004883 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 627192004884 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192004885 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 627192004886 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192004887 putative ADP-binding pocket [chemical binding]; other site 627192004888 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192004889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192004890 NAD(P) binding site [chemical binding]; other site 627192004891 active site 627192004892 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 627192004893 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192004894 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 627192004895 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 627192004896 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192004897 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 627192004898 internal virion protein C; Region: PHA00431 627192004899 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 627192004900 putative ADP-binding pocket [chemical binding]; other site 627192004901 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192004902 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192004903 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 627192004904 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192004905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 627192004906 Methyltransferase domain; Region: Methyltransf_31; pfam13847 627192004907 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 627192004908 S-adenosylmethionine binding site [chemical binding]; other site 627192004909 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 627192004910 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 627192004911 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192004912 NAD binding site [chemical binding]; other site 627192004913 putative substrate binding site 2 [chemical binding]; other site 627192004914 putative substrate binding site 1 [chemical binding]; other site 627192004915 active site 627192004916 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 627192004917 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 627192004918 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 627192004919 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 627192004920 EPS-associated transcriptional regulator, MarR family; Region: MarR_EPS; TIGR04176 627192004921 putative DNA binding site [nucleotide binding]; other site 627192004922 putative Zn2+ binding site [ion binding]; other site 627192004923 enoyl-CoA hydratase; Provisional; Region: PRK05862 627192004924 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 627192004925 substrate binding site [chemical binding]; other site 627192004926 oxyanion hole (OAH) forming residues; other site 627192004927 trimer interface [polypeptide binding]; other site 627192004928 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 627192004929 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 627192004930 Walker A motif; other site 627192004931 ATP binding site [chemical binding]; other site 627192004932 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 627192004933 Walker B motif; other site 627192004934 arginine finger; other site 627192004935 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 627192004936 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 627192004937 active site 627192004938 HslU subunit interaction site [polypeptide binding]; other site 627192004939 hypothetical protein; Provisional; Region: PRK05208 627192004940 Domain of unknown function (DUF389); Region: DUF389; pfam04087 627192004941 hypothetical protein; Provisional; Region: PRK09133 627192004942 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 627192004943 putative metal binding site [ion binding]; other site 627192004944 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 627192004945 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192004946 Protein of unknown function (DUF461); Region: DUF461; pfam04314 627192004947 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 627192004948 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 627192004949 nucleotide binding site [chemical binding]; other site 627192004950 NEF interaction site [polypeptide binding]; other site 627192004951 SBD interface [polypeptide binding]; other site 627192004952 chaperone protein DnaJ; Provisional; Region: PRK10767 627192004953 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 627192004954 HSP70 interaction site [polypeptide binding]; other site 627192004955 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 627192004956 Zn binding sites [ion binding]; other site 627192004957 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 627192004958 dimer interface [polypeptide binding]; other site 627192004959 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 627192004960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192004961 NAD(P) binding site [chemical binding]; other site 627192004962 active site 627192004963 amidophosphoribosyltransferase; Provisional; Region: PRK09123 627192004964 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 627192004965 active site 627192004966 tetramer interface [polypeptide binding]; other site 627192004967 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 627192004968 active site 627192004969 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 627192004970 CcmE; Region: CcmE; pfam03100 627192004971 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 627192004972 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 627192004973 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 627192004974 catalytic residues [active] 627192004975 central insert; other site 627192004976 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 627192004977 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 627192004978 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 627192004979 potassium uptake protein; Region: kup; TIGR00794 627192004980 benzoate transport; Region: 2A0115; TIGR00895 627192004981 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 627192004982 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 627192004983 active site 627192004984 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 627192004985 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 627192004986 XdhC Rossmann domain; Region: XdhC_C; pfam13478 627192004987 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 627192004988 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 627192004989 catalytic loop [active] 627192004990 iron binding site [ion binding]; other site 627192004991 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 627192004992 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 627192004993 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192004994 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 627192004995 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192004996 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192004997 Domain of unknown function (DUF427); Region: DUF427; pfam04248 627192004998 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 627192004999 ArsC family; Region: ArsC; pfam03960 627192005000 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 627192005001 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 627192005002 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 627192005003 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 627192005004 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 627192005005 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 627192005006 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 627192005007 carboxyltransferase (CT) interaction site; other site 627192005008 biotinylation site [posttranslational modification]; other site 627192005009 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 627192005010 Dehydroquinase class II; Region: DHquinase_II; pfam01220 627192005011 trimer interface [polypeptide binding]; other site 627192005012 active site 627192005013 dimer interface [polypeptide binding]; other site 627192005014 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 627192005015 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 627192005016 thiS-thiF/thiG interaction site; other site 627192005017 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 627192005018 ThiS interaction site; other site 627192005019 putative active site [active] 627192005020 tetramer interface [polypeptide binding]; other site 627192005021 CsbD-like; Region: CsbD; pfam05532 627192005022 L-type amino acid transporter; Region: 2A0308; TIGR00911 627192005023 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 627192005024 S-adenosylmethionine binding site [chemical binding]; other site 627192005025 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 627192005026 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 627192005027 benzoate transport; Region: 2A0115; TIGR00895 627192005028 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 627192005029 putative substrate translocation pore; other site 627192005030 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 627192005031 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 627192005032 substrate binding site [chemical binding]; other site 627192005033 ligand binding site [chemical binding]; other site 627192005034 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192005035 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 627192005036 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 627192005037 substrate binding site [chemical binding]; other site 627192005038 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 627192005039 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 627192005040 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 627192005041 putative GSH binding site [chemical binding]; other site 627192005042 catalytic residues [active] 627192005043 Penicillinase repressor; Region: Pencillinase_R; pfam03965 627192005044 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 627192005045 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192005046 quinolinate synthetase; Provisional; Region: PRK09375 627192005047 Predicted membrane protein [Function unknown]; Region: COG4325 627192005048 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 627192005049 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 627192005050 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192005051 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 627192005052 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 627192005053 dimerization interface [polypeptide binding]; other site 627192005054 active site 627192005055 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 627192005056 B1 nucleotide binding pocket [chemical binding]; other site 627192005057 B2 nucleotide binding pocket [chemical binding]; other site 627192005058 CAS motifs; other site 627192005059 active site 627192005060 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 627192005061 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 627192005062 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 627192005063 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 627192005064 IHF dimer interface [polypeptide binding]; other site 627192005065 IHF - DNA interface [nucleotide binding]; other site 627192005066 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 627192005067 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 627192005068 RNA binding site [nucleotide binding]; other site 627192005069 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 627192005070 RNA binding site [nucleotide binding]; other site 627192005071 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 627192005072 RNA binding site [nucleotide binding]; other site 627192005073 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 627192005074 RNA binding site [nucleotide binding]; other site 627192005075 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 627192005076 RNA binding site [nucleotide binding]; other site 627192005077 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 627192005078 RNA binding site [nucleotide binding]; other site 627192005079 cytidylate kinase; Provisional; Region: cmk; PRK00023 627192005080 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 627192005081 CMP-binding site; other site 627192005082 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 627192005083 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 627192005084 hinge; other site 627192005085 active site 627192005086 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 627192005087 TIGR02300 family protein; Region: FYDLN_acid 627192005088 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 627192005089 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 627192005090 iron-sulfur cluster [ion binding]; other site 627192005091 [2Fe-2S] cluster binding site [ion binding]; other site 627192005092 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 627192005093 putative alpha subunit interface [polypeptide binding]; other site 627192005094 putative active site [active] 627192005095 putative substrate binding site [chemical binding]; other site 627192005096 Fe binding site [ion binding]; other site 627192005097 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 627192005098 inter-subunit interface; other site 627192005099 DNA gyrase subunit A; Validated; Region: PRK05560 627192005100 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 627192005101 CAP-like domain; other site 627192005102 active site 627192005103 primary dimer interface [polypeptide binding]; other site 627192005104 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 627192005105 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 627192005106 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 627192005107 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 627192005108 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 627192005109 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 627192005110 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 627192005111 putative DNA binding site [nucleotide binding]; other site 627192005112 putative Zn2+ binding site [ion binding]; other site 627192005113 AsnC family; Region: AsnC_trans_reg; pfam01037 627192005114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192005115 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 627192005116 phosphorylation site [posttranslational modification] 627192005117 dimer interface [polypeptide binding]; other site 627192005118 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 627192005119 putative active site [active] 627192005120 putative catalytic site [active] 627192005121 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 627192005122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 627192005123 Putative periplasmic lipoprotein; Region: DUF1425; cl12345 627192005124 putative dimer interface [polypeptide binding]; other site 627192005125 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 627192005126 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 627192005127 DNA binding residues [nucleotide binding] 627192005128 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 627192005129 IHF dimer interface [polypeptide binding]; other site 627192005130 IHF - DNA interface [nucleotide binding]; other site 627192005131 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 627192005132 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 627192005133 Catalytic domain of Protein Kinases; Region: PKc; cd00180 627192005134 active site 627192005135 ATP binding site [chemical binding]; other site 627192005136 substrate binding site [chemical binding]; other site 627192005137 activation loop (A-loop); other site 627192005138 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 627192005139 Thrombospondin C-terminal region; Region: TSP_C; pfam05735 627192005140 Transposase; Region: HTH_Tnp_1; cl17663 627192005141 Winged helix-turn helix; Region: HTH_29; pfam13551 627192005142 Integrase core domain; Region: rve; pfam00665 627192005143 Integrase core domain; Region: rve_3; pfam13683 627192005144 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 627192005145 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 627192005146 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 627192005147 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 627192005148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192005149 phosphoenolpyruvate synthase; Validated; Region: PRK06464 627192005150 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 627192005151 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 627192005152 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 627192005153 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 627192005154 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 627192005155 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 627192005156 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 627192005157 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 627192005158 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 627192005159 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 627192005160 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 627192005161 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 627192005162 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 627192005163 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 627192005164 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005165 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 627192005166 N-terminal plug; other site 627192005167 ligand-binding site [chemical binding]; other site 627192005168 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 627192005169 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 627192005170 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 627192005171 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 627192005172 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 627192005173 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 627192005174 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 627192005175 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 627192005176 N-terminal plug; other site 627192005177 ligand-binding site [chemical binding]; other site 627192005178 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 627192005179 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 627192005180 putative substrate translocation pore; other site 627192005181 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 627192005182 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 627192005183 putative active site [active] 627192005184 metal binding site [ion binding]; metal-binding site 627192005185 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 627192005186 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 627192005187 motif II; other site 627192005188 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 627192005189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192005190 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 627192005191 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 627192005192 dimerization interface [polypeptide binding]; other site 627192005193 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 627192005194 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 627192005195 Uncharacterized conserved protein [Function unknown]; Region: COG3379 627192005196 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 627192005197 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 627192005198 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005199 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192005200 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 627192005201 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 627192005202 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 627192005203 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 627192005204 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 627192005205 rod shape-determining protein MreC; Provisional; Region: PRK13922 627192005206 rod shape-determining protein MreC; Region: MreC; pfam04085 627192005207 rod shape-determining protein MreB; Provisional; Region: PRK13927 627192005208 MreB and similar proteins; Region: MreB_like; cd10225 627192005209 nucleotide binding site [chemical binding]; other site 627192005210 Mg binding site [ion binding]; other site 627192005211 putative protofilament interaction site [polypeptide binding]; other site 627192005212 RodZ interaction site [polypeptide binding]; other site 627192005213 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 627192005214 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 627192005215 ATP binding site [chemical binding]; other site 627192005216 Mg2+ binding site [ion binding]; other site 627192005217 G-X-G motif; other site 627192005218 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 627192005219 ATP binding site [chemical binding]; other site 627192005220 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 627192005221 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 627192005222 putative active site [active] 627192005223 putative catalytic site [active] 627192005224 PhoD-like phosphatase; Region: PhoD; pfam09423 627192005225 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 627192005226 putative active site [active] 627192005227 putative metal binding site [ion binding]; other site 627192005228 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 627192005229 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 627192005230 heme-binding site [chemical binding]; other site 627192005231 GTP-binding protein YchF; Reviewed; Region: PRK09601 627192005232 YchF GTPase; Region: YchF; cd01900 627192005233 G1 box; other site 627192005234 GTP/Mg2+ binding site [chemical binding]; other site 627192005235 Switch I region; other site 627192005236 G2 box; other site 627192005237 Switch II region; other site 627192005238 G3 box; other site 627192005239 G4 box; other site 627192005240 G5 box; other site 627192005241 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 627192005242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 627192005243 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 627192005244 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 627192005245 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 627192005246 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 627192005247 putative active site [active] 627192005248 catalytic residue [active] 627192005249 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 627192005250 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 627192005251 5S rRNA interface [nucleotide binding]; other site 627192005252 CTC domain interface [polypeptide binding]; other site 627192005253 L16 interface [polypeptide binding]; other site 627192005254 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 627192005255 putative active site [active] 627192005256 heme pocket [chemical binding]; other site 627192005257 Response regulator receiver domain; Region: Response_reg; pfam00072 627192005258 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 627192005259 active site 627192005260 phosphorylation site [posttranslational modification] 627192005261 intermolecular recognition site; other site 627192005262 dimerization interface [polypeptide binding]; other site 627192005263 TraB family; Region: TraB; pfam01963 627192005264 TraB family; Region: TraB; pfam01963 627192005265 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 627192005266 dimer interface [polypeptide binding]; other site 627192005267 motif 1; other site 627192005268 active site 627192005269 motif 2; other site 627192005270 motif 3; other site 627192005271 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 627192005272 pyruvate phosphate dikinase; Provisional; Region: PRK09279 627192005273 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 627192005274 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 627192005275 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 627192005276 potential frameshift: common BLAST hit: gi|153012050|ref|YP_001373261.1| transposase 627192005277 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192005278 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 627192005279 active site 627192005280 oxyanion hole [active] 627192005281 catalytic triad [active] 627192005282 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 627192005283 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 627192005284 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 627192005285 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 627192005286 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 627192005287 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 627192005288 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 627192005289 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 627192005290 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 627192005291 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 627192005292 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 627192005293 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 627192005294 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 627192005295 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 627192005296 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 627192005297 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192005298 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 627192005299 polymerase nucleotide-binding site; other site 627192005300 DNA-binding residues [nucleotide binding]; DNA binding site 627192005301 nucleotide binding site [chemical binding]; other site 627192005302 primase nucleotide-binding site [nucleotide binding]; other site 627192005303 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 627192005304 Virulence-associated protein E; Region: VirE; pfam05272 627192005305 Helix-turn-helix domain; Region: HTH_17; cl17695 627192005306 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 627192005307 active site 627192005308 DNA binding site [nucleotide binding] 627192005309 Int/Topo IB signature motif; other site 627192005310 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 627192005311 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192005312 Predicted amidohydrolase [General function prediction only]; Region: COG0388 627192005313 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 627192005314 putative active site [active] 627192005315 catalytic triad [active] 627192005316 putative dimer interface [polypeptide binding]; other site 627192005317 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 627192005318 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 627192005319 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 627192005320 hexamer interface [polypeptide binding]; other site 627192005321 ligand binding site [chemical binding]; other site 627192005322 putative active site [active] 627192005323 NAD(P) binding site [chemical binding]; other site 627192005324 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 627192005325 putative active site [active] 627192005326 Ap4A binding site [chemical binding]; other site 627192005327 nudix motif; other site 627192005328 putative metal binding site [ion binding]; other site 627192005329 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 627192005330 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 627192005331 DNA photolyase; Region: DNA_photolyase; pfam00875 627192005332 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 627192005333 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 627192005334 S-adenosylmethionine binding site [chemical binding]; other site 627192005335 patatin-related protein; Region: TIGR03607 627192005336 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 627192005337 putative catalytic site [active] 627192005338 putative metal binding site [ion binding]; other site 627192005339 putative phosphate binding site [ion binding]; other site 627192005340 Protein required for attachment to host cells; Region: Host_attach; pfam10116 627192005341 DNA repair protein RadA; Provisional; Region: PRK11823 627192005342 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 627192005343 Walker A motif; other site 627192005344 ATP binding site [chemical binding]; other site 627192005345 Walker B motif; other site 627192005346 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 627192005347 Colicin V production protein; Region: Colicin_V; pfam02674 627192005348 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 627192005349 trimerization site [polypeptide binding]; other site 627192005350 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 627192005351 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 627192005352 TrkA-N domain; Region: TrkA_N; pfam02254 627192005353 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 627192005354 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 627192005355 active site 627192005356 dimer interface [polypeptide binding]; other site 627192005357 metal binding site [ion binding]; metal-binding site 627192005358 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 627192005359 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 627192005360 ADP binding site [chemical binding]; other site 627192005361 magnesium binding site [ion binding]; other site 627192005362 putative shikimate binding site; other site 627192005363 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 627192005364 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 627192005365 active site 627192005366 DNA binding site [nucleotide binding] 627192005367 Int/Topo IB signature motif; other site 627192005368 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 627192005369 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 627192005370 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 627192005371 Peptidase family M48; Region: Peptidase_M48; pfam01435 627192005372 Flp/Fap pilin component; Region: Flp_Fap; cl01585 627192005373 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 627192005374 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 627192005375 active site 627192005376 8-oxo-dGMP binding site [chemical binding]; other site 627192005377 nudix motif; other site 627192005378 metal binding site [ion binding]; metal-binding site 627192005379 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 627192005380 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 627192005381 S-adenosylmethionine binding site [chemical binding]; other site 627192005382 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 627192005383 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 627192005384 active site 627192005385 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 627192005386 GSH binding site [chemical binding]; other site 627192005387 catalytic residues [active] 627192005388 nitrilase; Region: PLN02798 627192005389 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 627192005390 putative active site [active] 627192005391 catalytic triad [active] 627192005392 dimer interface [polypeptide binding]; other site 627192005393 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 627192005394 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 627192005395 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 627192005396 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 627192005397 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 627192005398 homodimer interface [polypeptide binding]; other site 627192005399 metal binding site [ion binding]; metal-binding site 627192005400 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 627192005401 homodimer interface [polypeptide binding]; other site 627192005402 active site 627192005403 putative chemical substrate binding site [chemical binding]; other site 627192005404 metal binding site [ion binding]; metal-binding site 627192005405 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 627192005406 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 627192005407 HflX GTPase family; Region: HflX; cd01878 627192005408 G1 box; other site 627192005409 GTP/Mg2+ binding site [chemical binding]; other site 627192005410 Switch I region; other site 627192005411 G2 box; other site 627192005412 G3 box; other site 627192005413 Switch II region; other site 627192005414 G4 box; other site 627192005415 G5 box; other site 627192005416 bacterial Hfq-like; Region: Hfq; cd01716 627192005417 hexamer interface [polypeptide binding]; other site 627192005418 Sm1 motif; other site 627192005419 RNA binding site [nucleotide binding]; other site 627192005420 Sm2 motif; other site 627192005421 bacterial Hfq-like; Region: Hfq; cd01716 627192005422 hexamer interface [polypeptide binding]; other site 627192005423 Sm1 motif; other site 627192005424 RNA binding site [nucleotide binding]; other site 627192005425 Sm2 motif; other site 627192005426 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 627192005427 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 627192005428 active site 627192005429 phosphorylation site [posttranslational modification] 627192005430 intermolecular recognition site; other site 627192005431 dimerization interface [polypeptide binding]; other site 627192005432 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 627192005433 Walker A motif; other site 627192005434 ATP binding site [chemical binding]; other site 627192005435 Walker B motif; other site 627192005436 arginine finger; other site 627192005437 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 627192005438 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 627192005439 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 627192005440 dimerization interface [polypeptide binding]; other site 627192005441 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 627192005442 dimer interface [polypeptide binding]; other site 627192005443 phosphorylation site [posttranslational modification] 627192005444 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 627192005445 ATP binding site [chemical binding]; other site 627192005446 Mg2+ binding site [ion binding]; other site 627192005447 G-X-G motif; other site 627192005448 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 627192005449 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 627192005450 active site 627192005451 phosphorylation site [posttranslational modification] 627192005452 intermolecular recognition site; other site 627192005453 dimerization interface [polypeptide binding]; other site 627192005454 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 627192005455 Walker A motif; other site 627192005456 ATP binding site [chemical binding]; other site 627192005457 Walker B motif; other site 627192005458 arginine finger; other site 627192005459 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 627192005460 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 627192005461 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 627192005462 dimer interface [polypeptide binding]; other site 627192005463 phosphorylation site [posttranslational modification] 627192005464 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 627192005465 ATP binding site [chemical binding]; other site 627192005466 Mg2+ binding site [ion binding]; other site 627192005467 G-X-G motif; other site 627192005468 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 627192005469 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 627192005470 FMN binding site [chemical binding]; other site 627192005471 active site 627192005472 catalytic residues [active] 627192005473 substrate binding site [chemical binding]; other site 627192005474 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 627192005475 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 627192005476 substrate binding site; other site 627192005477 dimer interface; other site 627192005478 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 627192005479 homotrimer interaction site [polypeptide binding]; other site 627192005480 zinc binding site [ion binding]; other site 627192005481 CDP-binding sites; other site 627192005482 Competence-damaged protein; Region: CinA; pfam02464 627192005483 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 627192005484 putative coenzyme Q binding site [chemical binding]; other site 627192005485 lipoyl synthase; Provisional; Region: PRK05481 627192005486 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 627192005487 active site clefts [active] 627192005488 zinc binding site [ion binding]; other site 627192005489 dimer interface [polypeptide binding]; other site 627192005490 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 627192005491 putative active site pocket [active] 627192005492 dimerization interface [polypeptide binding]; other site 627192005493 putative catalytic residue [active] 627192005494 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 627192005495 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 627192005496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192005497 Walker A/P-loop; other site 627192005498 ATP binding site [chemical binding]; other site 627192005499 Q-loop/lid; other site 627192005500 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192005501 ABC transporter; Region: ABC_tran_2; pfam12848 627192005502 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192005503 amino acid transporter; Region: 2A0306; TIGR00909 627192005504 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 627192005505 Transcriptional regulators [Transcription]; Region: GntR; COG1802 627192005506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192005507 DNA-binding site [nucleotide binding]; DNA binding site 627192005508 FCD domain; Region: FCD; pfam07729 627192005509 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 627192005510 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 627192005511 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 627192005512 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 627192005513 inhibitor site; inhibition site 627192005514 active site 627192005515 dimer interface [polypeptide binding]; other site 627192005516 catalytic residue [active] 627192005517 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 627192005518 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 627192005519 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 627192005520 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 627192005521 active site 627192005522 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 627192005523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 627192005524 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 627192005525 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 627192005526 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 627192005527 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192005528 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 627192005529 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 627192005530 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 627192005531 dimer interface [polypeptide binding]; other site 627192005532 NADP binding site [chemical binding]; other site 627192005533 catalytic residues [active] 627192005534 hypothetical protein; Provisional; Region: PRK06489 627192005535 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 627192005536 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 627192005537 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 627192005538 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 627192005539 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 627192005540 active site 627192005541 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192005542 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 627192005543 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 627192005544 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005545 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 627192005546 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 627192005547 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; cd01066 627192005548 active site 627192005549 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 627192005550 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192005551 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192005552 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 627192005553 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 627192005554 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 627192005555 Amidohydrolase; Region: Amidohydro_4; pfam13147 627192005556 active site 627192005557 Proline racemase; Region: Pro_racemase; pfam05544 627192005558 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 627192005559 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192005560 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 627192005561 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 627192005562 Part of AAA domain; Region: AAA_19; pfam13245 627192005563 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 627192005564 AAA domain; Region: AAA_12; pfam13087 627192005565 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 627192005566 putative active site [active] 627192005567 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 627192005568 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 627192005569 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192005570 iron-sulfur cluster [ion binding]; other site 627192005571 [2Fe-2S] cluster binding site [ion binding]; other site 627192005572 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 627192005573 alpha subunit interface [polypeptide binding]; other site 627192005574 active site 627192005575 substrate binding site [chemical binding]; other site 627192005576 Fe binding site [ion binding]; other site 627192005577 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 627192005578 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 627192005579 active site 627192005580 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 627192005581 Transposase; Region: HTH_Tnp_1; pfam01527 627192005582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 627192005583 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 627192005584 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 627192005585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 627192005586 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 627192005587 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 627192005588 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 627192005589 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192005590 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192005591 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 627192005592 potential frameshift: common BLAST hit: gi|295689154|ref|YP_003592847.1| TonB-dependent receptor plug 627192005593 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005594 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 627192005595 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 627192005596 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 627192005597 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 627192005598 active site 627192005599 catalytic tetrad [active] 627192005600 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192005601 MarR family; Region: MarR_2; pfam12802 627192005602 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 627192005603 heme-binding site [chemical binding]; other site 627192005604 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 627192005605 cation transport protein; Region: 2A0119; TIGR00898 627192005606 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005607 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 627192005608 N-terminal plug; other site 627192005609 ligand-binding site [chemical binding]; other site 627192005610 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 627192005611 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192005612 iron-sulfur cluster [ion binding]; other site 627192005613 [2Fe-2S] cluster binding site [ion binding]; other site 627192005614 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 627192005615 alpha subunit interface [polypeptide binding]; other site 627192005616 active site 627192005617 substrate binding site [chemical binding]; other site 627192005618 Fe binding site [ion binding]; other site 627192005619 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192005620 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192005621 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 627192005622 putative substrate translocation pore; other site 627192005623 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192005624 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 627192005625 classical (c) SDRs; Region: SDR_c; cd05233 627192005626 NAD(P) binding site [chemical binding]; other site 627192005627 active site 627192005628 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005629 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 627192005630 N-terminal plug; other site 627192005631 ligand-binding site [chemical binding]; other site 627192005632 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 627192005633 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 627192005634 Trp docking motif [polypeptide binding]; other site 627192005635 active site 627192005636 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 627192005637 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192005638 potential frameshift: common BLAST hit: gi|294012849|ref|YP_003546309.1| TetR-family transcriptional regulator 627192005639 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192005640 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192005641 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192005642 MarR family; Region: MarR; pfam01047 627192005643 MarR family; Region: MarR_2; cl17246 627192005644 SnoaL-like domain; Region: SnoaL_4; cl17707 627192005645 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192005646 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 627192005647 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192005648 putative substrate translocation pore; other site 627192005649 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 627192005650 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 627192005651 benzoate transport; Region: 2A0115; TIGR00895 627192005652 putative substrate translocation pore; other site 627192005653 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 627192005654 putative substrate translocation pore; other site 627192005655 hypothetical protein; Region: PHA01782 627192005656 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192005657 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 627192005658 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192005659 iron-sulfur cluster [ion binding]; other site 627192005660 [2Fe-2S] cluster binding site [ion binding]; other site 627192005661 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 627192005662 alpha subunit interface [polypeptide binding]; other site 627192005663 active site 627192005664 substrate binding site [chemical binding]; other site 627192005665 Fe binding site [ion binding]; other site 627192005666 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192005667 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 627192005668 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 627192005669 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 627192005670 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 627192005671 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 627192005672 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 627192005673 classical (c) SDRs; Region: SDR_c; cd05233 627192005674 NAD(P) binding site [chemical binding]; other site 627192005675 active site 627192005676 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192005677 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192005678 benzoate transport; Region: 2A0115; TIGR00895 627192005679 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 627192005680 putative substrate translocation pore; other site 627192005681 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 627192005682 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 627192005683 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 627192005684 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 627192005685 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005686 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 627192005687 N-terminal plug; other site 627192005688 ligand-binding site [chemical binding]; other site 627192005689 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 627192005690 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192005691 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 627192005692 S-formylglutathione hydrolase; Region: PLN02442 627192005693 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 627192005694 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 627192005695 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192005696 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 627192005697 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 627192005698 NAD(P) binding site [chemical binding]; other site 627192005699 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 627192005700 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192005701 iron-sulfur cluster [ion binding]; other site 627192005702 [2Fe-2S] cluster binding site [ion binding]; other site 627192005703 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 627192005704 alpha subunit interface [polypeptide binding]; other site 627192005705 active site 627192005706 substrate binding site [chemical binding]; other site 627192005707 Fe binding site [ion binding]; other site 627192005708 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 627192005709 classical (c) SDRs; Region: SDR_c; cd05233 627192005710 NAD(P) binding site [chemical binding]; other site 627192005711 active site 627192005712 Transcriptional regulators [Transcription]; Region: GntR; COG1802 627192005713 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192005714 DNA-binding site [nucleotide binding]; DNA binding site 627192005715 FCD domain; Region: FCD; pfam07729 627192005716 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 627192005717 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 627192005718 NAD(P) binding site [chemical binding]; other site 627192005719 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 627192005720 benzoate transport; Region: 2A0115; TIGR00895 627192005721 putative substrate translocation pore; other site 627192005722 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192005723 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192005724 active site 627192005725 benzoate transport; Region: 2A0115; TIGR00895 627192005726 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 627192005727 putative substrate translocation pore; other site 627192005728 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 627192005729 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192005730 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 627192005731 N-terminal plug; other site 627192005732 ligand-binding site [chemical binding]; other site 627192005733 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 627192005734 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 627192005735 tetramer interface [polypeptide binding]; other site 627192005736 TPP-binding site [chemical binding]; other site 627192005737 heterodimer interface [polypeptide binding]; other site 627192005738 phosphorylation loop region [posttranslational modification] 627192005739 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 627192005740 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 627192005741 E3 interaction surface; other site 627192005742 lipoyl attachment site [posttranslational modification]; other site 627192005743 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 627192005744 alpha subunit interface [polypeptide binding]; other site 627192005745 TPP binding site [chemical binding]; other site 627192005746 heterodimer interface [polypeptide binding]; other site 627192005747 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 627192005748 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 627192005749 e3 binding domain; Region: E3_binding; pfam02817 627192005750 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 627192005751 Transcriptional regulators [Transcription]; Region: GntR; COG1802 627192005752 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192005753 DNA-binding site [nucleotide binding]; DNA binding site 627192005754 FCD domain; Region: FCD; pfam07729 627192005755 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 627192005756 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 627192005757 active site 627192005758 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 627192005759 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192005760 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate; Region: 3MGA_Dioxygenase; cd07366 627192005761 putative active site [active] 627192005762 putative Fe(II) binding site [ion binding]; other site 627192005763 putative dimer interface [polypeptide binding]; other site 627192005764 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 627192005765 putative tetramer interface [polypeptide binding]; other site 627192005766 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 627192005767 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 627192005768 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 627192005769 hypothetical protein; Validated; Region: PRK06201 627192005770 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 627192005771 YCII-related domain; Region: YCII; cl00999 627192005772 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 627192005773 SnoaL-like domain; Region: SnoaL_3; pfam13474 627192005774 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192005775 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 627192005776 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192005777 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 627192005778 alpha subunit interface [polypeptide binding]; other site 627192005779 active site 627192005780 substrate binding site [chemical binding]; other site 627192005781 Fe binding site [ion binding]; other site 627192005782 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192005783 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192005784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192005785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192005786 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 627192005787 dimerization interface [polypeptide binding]; other site 627192005788 formate dehydrogenase; Provisional; Region: PRK07574 627192005789 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 627192005790 dimerization interface [polypeptide binding]; other site 627192005791 ligand binding site [chemical binding]; other site 627192005792 NAD binding site [chemical binding]; other site 627192005793 catalytic site [active] 627192005794 HPP family; Region: HPP; pfam04982 627192005795 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192005796 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 627192005797 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 627192005798 Protein of unknown function (DUF736); Region: DUF736; pfam05284 627192005799 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The...; Region: SANT; cl17250 627192005800 Domain of unknown function DUF87; Region: DUF87; pfam01935 627192005801 HerA helicase [Replication, recombination, and repair]; Region: COG0433 627192005802 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 627192005803 ATP binding site [chemical binding]; other site 627192005804 Mg2+ binding site [ion binding]; other site 627192005805 G-X-G motif; other site 627192005806 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 627192005807 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 627192005808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192005809 Walker A/P-loop; other site 627192005810 ATP binding site [chemical binding]; other site 627192005811 Q-loop/lid; other site 627192005812 ABC transporter signature motif; other site 627192005813 Walker B; other site 627192005814 D-loop; other site 627192005815 H-loop/switch region; other site 627192005816 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 627192005817 putative active site [active] 627192005818 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 627192005819 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 627192005820 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 627192005821 Helicase_C-like; Region: Helicase_C_4; pfam13871 627192005822 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 627192005823 active site 627192005824 catalytic triad [active] 627192005825 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 627192005826 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 627192005827 Walker A motif; other site 627192005828 ATP binding site [chemical binding]; other site 627192005829 Walker B motif; other site 627192005830 arginine finger; other site 627192005831 ParB-like nuclease domain; Region: ParB; smart00470 627192005832 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 627192005833 CHC2 zinc finger; Region: zf-CHC2; cl17510 627192005834 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 627192005835 Autoinducer binding domain; Region: Autoind_bind; pfam03472 627192005836 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 627192005837 DNA binding residues [nucleotide binding] 627192005838 Autoinducer synthetase; Region: Autoind_synth; cl17404 627192005839 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 627192005840 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192005841 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 627192005842 putative Zn2+ binding site [ion binding]; other site 627192005843 putative DNA binding site [nucleotide binding]; other site 627192005844 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 627192005845 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 627192005846 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192005847 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 627192005848 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 627192005849 FecR protein; Region: FecR; pfam04773 627192005850 Secretin and TonB N terminus short domain; Region: STN; smart00965 627192005851 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 627192005852 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 627192005853 N-terminal plug; other site 627192005854 ligand-binding site [chemical binding]; other site 627192005855 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 627192005856 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192005857 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 627192005858 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 627192005859 Ligand Binding Site [chemical binding]; other site 627192005860 Molecular Tunnel; other site 627192005861 Transcriptional regulators [Transcription]; Region: GntR; COG1802 627192005862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192005863 DNA-binding site [nucleotide binding]; DNA binding site 627192005864 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 627192005865 non-specific DNA binding site [nucleotide binding]; other site 627192005866 salt bridge; other site 627192005867 sequence-specific DNA binding site [nucleotide binding]; other site 627192005868 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 627192005869 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 627192005870 dimerization domain [polypeptide binding]; other site 627192005871 dimer interface [polypeptide binding]; other site 627192005872 catalytic residues [active] 627192005873 TraE protein; Region: TraE; cl05060 627192005874 TraK protein; Region: TraK; pfam06586 627192005875 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 627192005876 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 627192005877 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 627192005878 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 627192005879 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 627192005880 TraU protein; Region: TraU; pfam06834 627192005881 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 627192005882 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 627192005883 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 627192005884 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 627192005885 F plasmid transfer operon protein; Region: TraF; pfam13728 627192005886 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 627192005887 catalytic residues [active] 627192005888 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 627192005889 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 627192005890 Walker A motif; other site 627192005891 ATP binding site [chemical binding]; other site 627192005892 Walker B motif; other site 627192005893 arginine finger; other site 627192005894 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 627192005895 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 627192005896 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 627192005897 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 627192005898 catalytic residues [active] 627192005899 catalytic nucleophile [active] 627192005900 Recombinase; Region: Recombinase; pfam07508 627192005901 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 627192005902 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 627192005903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192005904 putative substrate translocation pore; other site 627192005905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192005906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192005907 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 627192005908 dimerization interface [polypeptide binding]; other site 627192005909 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 627192005910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192005911 NAD(P) binding site [chemical binding]; other site 627192005912 active site 627192005913 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 627192005914 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192005915 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 627192005916 Beta-lactamase; Region: Beta-lactamase; pfam00144 627192005917 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 627192005918 classical (c) SDRs; Region: SDR_c; cd05233 627192005919 NAD(P) binding site [chemical binding]; other site 627192005920 active site 627192005921 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 627192005922 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192005923 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 627192005924 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 627192005925 Beta-lactamase; Region: Beta-lactamase; pfam00144 627192005926 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 627192005927 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 627192005928 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192005929 Cytochrome P450; Region: p450; cl12078 627192005930 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 627192005931 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192005932 choline dehydrogenase; Validated; Region: PRK02106 627192005933 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 627192005934 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 627192005935 putative hydrolase; Provisional; Region: PRK02113 627192005936 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 627192005937 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 627192005938 active site 627192005939 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 627192005940 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 627192005941 active site 627192005942 HIGH motif; other site 627192005943 KMSKS motif; other site 627192005944 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 627192005945 tRNA binding surface [nucleotide binding]; other site 627192005946 anticodon binding site; other site 627192005947 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 627192005948 DNA polymerase III subunit delta'; Validated; Region: PRK08485 627192005949 thymidylate kinase; Validated; Region: tmk; PRK00698 627192005950 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 627192005951 TMP-binding site; other site 627192005952 ATP-binding site [chemical binding]; other site 627192005953 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 627192005954 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 627192005955 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 627192005956 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 627192005957 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 627192005958 Sporulation related domain; Region: SPOR; pfam05036 627192005959 Transglycosylase SLT domain; Region: SLT_2; pfam13406 627192005960 murein hydrolase B; Provisional; Region: PRK10760; cl17906 627192005961 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 627192005962 putative hydrophobic ligand binding site [chemical binding]; other site 627192005963 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 627192005964 dimerization interface [polypeptide binding]; other site 627192005965 putative DNA binding site [nucleotide binding]; other site 627192005966 putative Zn2+ binding site [ion binding]; other site 627192005967 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 627192005968 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 627192005969 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 627192005970 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 627192005971 homodimer interface [polypeptide binding]; other site 627192005972 NADP binding site [chemical binding]; other site 627192005973 substrate binding site [chemical binding]; other site 627192005974 hypothetical protein; Provisional; Region: PRK02237 627192005975 glutamate racemase; Provisional; Region: PRK00865 627192005976 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 627192005977 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 627192005978 substrate-cofactor binding pocket; other site 627192005979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192005980 catalytic residue [active] 627192005981 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192005982 metal binding site [ion binding]; metal-binding site 627192005983 active site 627192005984 I-site; other site 627192005985 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 627192005986 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 627192005987 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 627192005988 FeS/SAM binding site; other site 627192005989 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 627192005990 ATP-NAD kinase; Region: NAD_kinase; pfam01513 627192005991 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 627192005992 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192005993 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 627192005994 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 627192005995 NAD(P) binding site [chemical binding]; other site 627192005996 catalytic residues [active] 627192005997 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 627192005998 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 627192005999 putative substrate binding site [chemical binding]; other site 627192006000 putative ATP binding site [chemical binding]; other site 627192006001 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 627192006002 putative substrate translocation pore; other site 627192006003 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192006004 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192006005 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192006006 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 627192006007 N-terminal plug; other site 627192006008 ligand-binding site [chemical binding]; other site 627192006009 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192006010 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 627192006011 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 627192006012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192006013 putative substrate translocation pore; other site 627192006014 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 627192006015 putative ADP-binding pocket [chemical binding]; other site 627192006016 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192006017 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 627192006018 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 627192006019 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 627192006020 Walker A motif; other site 627192006021 ATP binding site [chemical binding]; other site 627192006022 Walker B motif; other site 627192006023 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 627192006024 Clp protease; Region: CLP_protease; pfam00574 627192006025 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 627192006026 oligomer interface [polypeptide binding]; other site 627192006027 active site residues [active] 627192006028 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 627192006029 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 627192006030 active site 627192006031 trigger factor; Provisional; Region: tig; PRK01490 627192006032 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 627192006033 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 627192006034 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 627192006035 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 627192006036 GatB domain; Region: GatB_Yqey; smart00845 627192006037 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 627192006038 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 627192006039 acyl-activating enzyme (AAE) consensus motif; other site 627192006040 AMP binding site [chemical binding]; other site 627192006041 active site 627192006042 CoA binding site [chemical binding]; other site 627192006043 Acyltransferase family; Region: Acyl_transf_3; pfam01757 627192006044 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 627192006045 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 627192006046 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 627192006047 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 627192006048 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 627192006049 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 627192006050 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 627192006051 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 627192006052 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 627192006053 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 627192006054 dihydroorotase; Validated; Region: pyrC; PRK09357 627192006055 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 627192006056 active site 627192006057 Sporulation related domain; Region: SPOR; pfam05036 627192006058 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 627192006059 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 627192006060 P-loop; other site 627192006061 Magnesium ion binding site [ion binding]; other site 627192006062 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 627192006063 TPR motif; other site 627192006064 binding surface 627192006065 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 627192006066 Sporulation related domain; Region: SPOR; pfam05036 627192006067 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 627192006068 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 627192006069 motif II; other site 627192006070 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 627192006071 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 627192006072 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 627192006073 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 627192006074 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 627192006075 PYR/PP interface [polypeptide binding]; other site 627192006076 dimer interface [polypeptide binding]; other site 627192006077 TPP binding site [chemical binding]; other site 627192006078 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 627192006079 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 627192006080 TPP-binding site [chemical binding]; other site 627192006081 dimer interface [polypeptide binding]; other site 627192006082 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 627192006083 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 627192006084 putative valine binding site [chemical binding]; other site 627192006085 dimer interface [polypeptide binding]; other site 627192006086 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 627192006087 ketol-acid reductoisomerase; Provisional; Region: PRK05479 627192006088 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 627192006089 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 627192006090 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 627192006091 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 627192006092 Uncharacterized conserved protein [Function unknown]; Region: COG2353 627192006093 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 627192006094 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 627192006095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192006096 Methyltransferase domain; Region: Methyltransf_11; pfam08241 627192006097 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192006098 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 627192006099 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 627192006100 DXD motif; other site 627192006101 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 627192006102 Bacterial sugar transferase; Region: Bac_transf; pfam02397 627192006103 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 627192006104 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 627192006105 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 627192006106 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 627192006107 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 627192006108 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 627192006109 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 627192006110 active site 627192006111 homodimer interface [polypeptide binding]; other site 627192006112 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 627192006113 LytTr DNA-binding domain; Region: LytTR; smart00850 627192006114 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 627192006115 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 627192006116 Predicted transcriptional regulators [Transcription]; Region: COG1695 627192006117 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 627192006118 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 627192006119 dihydropteroate synthase; Region: DHPS; TIGR01496 627192006120 substrate binding pocket [chemical binding]; other site 627192006121 dimer interface [polypeptide binding]; other site 627192006122 inhibitor binding site; inhibition site 627192006123 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 627192006124 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 627192006125 Trp docking motif [polypeptide binding]; other site 627192006126 cytochrome domain interface [polypeptide binding]; other site 627192006127 active site 627192006128 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192006129 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 627192006130 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 627192006131 ligand binding site [chemical binding]; other site 627192006132 flexible hinge region; other site 627192006133 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 627192006134 putative switch regulator; other site 627192006135 non-specific DNA interactions [nucleotide binding]; other site 627192006136 DNA binding site [nucleotide binding] 627192006137 sequence specific DNA binding site [nucleotide binding]; other site 627192006138 putative cAMP binding site [chemical binding]; other site 627192006139 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 627192006140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192006141 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 627192006142 ATP binding site [chemical binding]; other site 627192006143 Mg2+ binding site [ion binding]; other site 627192006144 G-X-G motif; other site 627192006145 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 627192006146 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 627192006147 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 627192006148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 627192006149 MOSC domain; Region: MOSC; pfam03473 627192006150 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192006151 Predicted acetyltransferase [General function prediction only]; Region: COG3393 627192006152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192006153 Coenzyme A binding pocket [chemical binding]; other site 627192006154 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192006155 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 627192006156 putative Zn2+ binding site [ion binding]; other site 627192006157 putative DNA binding site [nucleotide binding]; other site 627192006158 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 627192006159 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 627192006160 23S rRNA interface [nucleotide binding]; other site 627192006161 L7/L12 interface [polypeptide binding]; other site 627192006162 putative thiostrepton binding site; other site 627192006163 L25 interface [polypeptide binding]; other site 627192006164 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 627192006165 mRNA/rRNA interface [nucleotide binding]; other site 627192006166 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 627192006167 catalytic motif [active] 627192006168 Catalytic residue [active] 627192006169 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 627192006170 23S rRNA interface [nucleotide binding]; other site 627192006171 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 627192006172 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 627192006173 core dimer interface [polypeptide binding]; other site 627192006174 peripheral dimer interface [polypeptide binding]; other site 627192006175 L10 interface [polypeptide binding]; other site 627192006176 L11 interface [polypeptide binding]; other site 627192006177 putative EF-Tu interaction site [polypeptide binding]; other site 627192006178 putative EF-G interaction site [polypeptide binding]; other site 627192006179 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 627192006180 active site 627192006181 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 627192006182 DDE superfamily endonuclease; Region: DDE_3; pfam13358 627192006183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 627192006184 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 627192006185 Homeodomain-like domain; Region: HTH_32; pfam13565 627192006186 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 627192006187 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192006188 S-adenosylmethionine binding site [chemical binding]; other site 627192006189 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 627192006190 Transposase; Region: HTH_Tnp_1; pfam01527 627192006191 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 627192006192 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192006193 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192006194 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 627192006195 YceG-like family; Region: YceG; pfam02618 627192006196 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 627192006197 dimerization interface [polypeptide binding]; other site 627192006198 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 627192006199 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 627192006200 dimer interface [polypeptide binding]; other site 627192006201 active site 627192006202 acyl carrier protein; Provisional; Region: acpP; PRK00982 627192006203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192006204 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 627192006205 NAD(P) binding site [chemical binding]; other site 627192006206 active site 627192006207 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 627192006208 S-adenosylmethionine binding site [chemical binding]; other site 627192006209 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 627192006210 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 627192006211 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 627192006212 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 627192006213 putative ion selectivity filter; other site 627192006214 putative pore gating glutamate residue; other site 627192006215 putative H+/Cl- coupling transport residue; other site 627192006216 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 627192006217 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 627192006218 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 627192006219 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 627192006220 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 627192006221 short chain dehydrogenase; Provisional; Region: PRK09134 627192006222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192006223 NAD(P) binding site [chemical binding]; other site 627192006224 active site 627192006225 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 627192006226 GTP cyclohydrolase I; Provisional; Region: PLN03044 627192006227 active site 627192006228 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 627192006229 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 627192006230 dimer interface [polypeptide binding]; other site 627192006231 active site 627192006232 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 627192006233 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 627192006234 substrate binding site [chemical binding]; other site 627192006235 oxyanion hole (OAH) forming residues; other site 627192006236 trimer interface [polypeptide binding]; other site 627192006237 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 627192006238 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 627192006239 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 627192006240 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192006241 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 627192006242 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 627192006243 Mechanosensitive ion channel; Region: MS_channel; pfam00924 627192006244 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 627192006245 Predicted transcriptional regulators [Transcription]; Region: COG1695 627192006246 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 627192006247 recombination factor protein RarA; Reviewed; Region: PRK13342 627192006248 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 627192006249 Walker A motif; other site 627192006250 ATP binding site [chemical binding]; other site 627192006251 Walker B motif; other site 627192006252 arginine finger; other site 627192006253 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 627192006254 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 627192006255 Peptidase family M48; Region: Peptidase_M48; cl12018 627192006256 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 627192006257 Chain length determinant protein; Region: Wzz; pfam02706 627192006258 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 627192006259 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 627192006260 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 627192006261 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 627192006262 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 627192006263 SLBB domain; Region: SLBB; pfam10531 627192006264 O-Antigen ligase; Region: Wzy_C; pfam04932 627192006265 Bacterial sugar transferase; Region: Bac_transf; pfam02397 627192006266 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 627192006267 transcriptional activator RfaH; Region: RfaH; TIGR01955 627192006268 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 627192006269 heterodimer interface [polypeptide binding]; other site 627192006270 homodimer interface [polypeptide binding]; other site 627192006271 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 627192006272 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 627192006273 active site 627192006274 catalytic residues [active] 627192006275 DNA binding site [nucleotide binding] 627192006276 Int/Topo IB signature motif; other site 627192006277 Phage integrase family; Region: Phage_integrase; pfam00589 627192006278 active site 627192006279 DNA binding site [nucleotide binding] 627192006280 Int/Topo IB signature motif; other site 627192006281 acyl-CoA synthetase; Validated; Region: PRK06188 627192006282 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 627192006283 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 627192006284 putative active site [active] 627192006285 putative CoA binding site [chemical binding]; other site 627192006286 putative AMP binding site [chemical binding]; other site 627192006287 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_15; cd07264 627192006288 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192006289 Helix-turn-helix domain; Region: HTH_18; pfam12833 627192006290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192006291 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 627192006292 Beta-lactamase; Region: Beta-lactamase; pfam00144 627192006293 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 627192006294 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 627192006295 active site 627192006296 catalytic residues [active] 627192006297 DNA binding site [nucleotide binding] 627192006298 Int/Topo IB signature motif; other site 627192006299 Protein of unknown function (DUF551); Region: DUF551; pfam04448 627192006300 HNH endonuclease; Region: HNH_3; pfam13392 627192006301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 627192006302 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 627192006303 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 627192006304 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 627192006305 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 627192006306 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 627192006307 non-specific DNA binding site [nucleotide binding]; other site 627192006308 salt bridge; other site 627192006309 sequence-specific DNA binding site [nucleotide binding]; other site 627192006310 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 627192006311 sequence-specific DNA binding site [nucleotide binding]; other site 627192006312 salt bridge; other site 627192006313 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 627192006314 DNA binding site [nucleotide binding] 627192006315 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 627192006316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 627192006317 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 627192006318 active site 627192006319 metal binding site [ion binding]; metal-binding site 627192006320 interdomain interaction site; other site 627192006321 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 627192006322 Walker A motif; other site 627192006323 ATP binding site [chemical binding]; other site 627192006324 Walker B motif; other site 627192006325 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 627192006326 DNA-binding interface [nucleotide binding]; DNA binding site 627192006327 Phage terminase large subunit; Region: Terminase_3; cl12054 627192006328 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 627192006329 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 627192006330 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 627192006331 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 627192006332 putative NHN endonuclease; Region: PHA00280 627192006333 HNH endonuclease; Region: HNH_3; pfam13392 627192006334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 627192006335 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 627192006336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 627192006337 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 627192006338 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 627192006339 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 627192006340 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 627192006341 tape measure domain; Region: tape_meas_nterm; TIGR02675 627192006342 Putative phage tail protein; Region: Phage-tail_3; pfam13550 627192006343 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 627192006344 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 627192006345 DNA binding site [nucleotide binding] 627192006346 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 627192006347 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 627192006348 catalytic residue [active] 627192006349 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 627192006350 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 627192006351 HSP70 interaction site [polypeptide binding]; other site 627192006352 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 627192006353 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 627192006354 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 627192006355 Probable Catalytic site; other site 627192006356 metal-binding site 627192006357 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 627192006358 Transposase; Region: HTH_Tnp_1; cl17663 627192006359 putative transposase OrfB; Reviewed; Region: PHA02517 627192006360 HTH-like domain; Region: HTH_21; pfam13276 627192006361 Integrase core domain; Region: rve; pfam00665 627192006362 Integrase core domain; Region: rve_3; cl15866 627192006363 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 627192006364 active site 627192006365 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 627192006366 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 627192006367 CysD dimerization site [polypeptide binding]; other site 627192006368 G1 box; other site 627192006369 putative GEF interaction site [polypeptide binding]; other site 627192006370 GTP/Mg2+ binding site [chemical binding]; other site 627192006371 Switch I region; other site 627192006372 G2 box; other site 627192006373 G3 box; other site 627192006374 Switch II region; other site 627192006375 G4 box; other site 627192006376 G5 box; other site 627192006377 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 627192006378 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 627192006379 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 627192006380 ligand-binding site [chemical binding]; other site 627192006381 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 627192006382 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 627192006383 Active Sites [active] 627192006384 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 627192006385 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 627192006386 active site 627192006387 interdomain interaction site; other site 627192006388 putative metal-binding site [ion binding]; other site 627192006389 nucleotide binding site [chemical binding]; other site 627192006390 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 627192006391 domain I; other site 627192006392 DNA binding groove [nucleotide binding] 627192006393 phosphate binding site [ion binding]; other site 627192006394 domain II; other site 627192006395 domain III; other site 627192006396 nucleotide binding site [chemical binding]; other site 627192006397 catalytic site [active] 627192006398 domain IV; other site 627192006399 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 627192006400 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 627192006401 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 627192006402 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 627192006403 DNA protecting protein DprA; Region: dprA; TIGR00732 627192006404 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 627192006405 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192006406 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 627192006407 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 627192006408 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 627192006409 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 627192006410 active site 627192006411 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 627192006412 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 627192006413 P-loop; other site 627192006414 Magnesium ion binding site [ion binding]; other site 627192006415 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 627192006416 Magnesium ion binding site [ion binding]; other site 627192006417 PAS domain S-box; Region: sensory_box; TIGR00229 627192006418 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 627192006419 putative active site [active] 627192006420 heme pocket [chemical binding]; other site 627192006421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 627192006422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192006423 metal binding site [ion binding]; metal-binding site 627192006424 active site 627192006425 I-site; other site 627192006426 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 627192006427 acyl-CoA synthetase; Validated; Region: PRK09192 627192006428 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 627192006429 acyl-activating enzyme (AAE) consensus motif; other site 627192006430 active site 627192006431 recombination regulator RecX; Reviewed; Region: recX; PRK00117 627192006432 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 627192006433 NADH dehydrogenase; Validated; Region: PRK08183 627192006434 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 627192006435 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 627192006436 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 627192006437 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192006438 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 627192006439 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 627192006440 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 627192006441 putative homodimer interface [polypeptide binding]; other site 627192006442 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 627192006443 heterodimer interface [polypeptide binding]; other site 627192006444 homodimer interface [polypeptide binding]; other site 627192006445 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 627192006446 DNA methylase; Region: N6_N4_Mtase; pfam01555 627192006447 Predicted membrane protein [Function unknown]; Region: COG2119 627192006448 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 627192006449 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 627192006450 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 627192006451 RNA/DNA hybrid binding site [nucleotide binding]; other site 627192006452 active site 627192006453 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 627192006454 dimer interface [polypeptide binding]; other site 627192006455 substrate binding site [chemical binding]; other site 627192006456 ATP binding site [chemical binding]; other site 627192006457 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192006458 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 627192006459 active site 627192006460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 627192006461 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 627192006462 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 627192006463 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 627192006464 active site 627192006465 substrate binding site [chemical binding]; other site 627192006466 metal binding site [ion binding]; metal-binding site 627192006467 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 627192006468 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 627192006469 putative substrate translocation pore; other site 627192006470 POT family; Region: PTR2; cl17359 627192006471 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 627192006472 putative FMN binding site [chemical binding]; other site 627192006473 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192006474 DNA-binding site [nucleotide binding]; DNA binding site 627192006475 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 627192006476 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 627192006477 active site 627192006478 phosphorylation site [posttranslational modification] 627192006479 intermolecular recognition site; other site 627192006480 dimerization interface [polypeptide binding]; other site 627192006481 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 627192006482 Walker A motif; other site 627192006483 ATP binding site [chemical binding]; other site 627192006484 Walker B motif; other site 627192006485 arginine finger; other site 627192006486 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 627192006487 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 627192006488 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 627192006489 ATP binding site [chemical binding]; other site 627192006490 Mg2+ binding site [ion binding]; other site 627192006491 G-X-G motif; other site 627192006492 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 627192006493 Bacterial sugar transferase; Region: Bac_transf; pfam02397 627192006494 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 627192006495 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 627192006496 metal binding site [ion binding]; metal-binding site 627192006497 putative dimer interface [polypeptide binding]; other site 627192006498 RmuC family; Region: RmuC; pfam02646 627192006499 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 627192006500 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 627192006501 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 627192006502 putative active site [active] 627192006503 putative PHP Thumb interface [polypeptide binding]; other site 627192006504 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 627192006505 generic binding surface I; other site 627192006506 generic binding surface II; other site 627192006507 Yip1 domain; Region: Yip1; pfam04893 627192006508 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 627192006509 C factor cell-cell signaling protein; Provisional; Region: PRK09009 627192006510 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 627192006511 NADP binding site [chemical binding]; other site 627192006512 homodimer interface [polypeptide binding]; other site 627192006513 active site 627192006514 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 627192006515 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 627192006516 Walker A/P-loop; other site 627192006517 ATP binding site [chemical binding]; other site 627192006518 Q-loop/lid; other site 627192006519 ABC transporter signature motif; other site 627192006520 Walker B; other site 627192006521 D-loop; other site 627192006522 H-loop/switch region; other site 627192006523 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 627192006524 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 627192006525 FtsX-like permease family; Region: FtsX; pfam02687 627192006526 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 627192006527 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 627192006528 putative dimer interface [polypeptide binding]; other site 627192006529 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 627192006530 CTP synthetase; Validated; Region: pyrG; PRK05380 627192006531 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 627192006532 Catalytic site [active] 627192006533 active site 627192006534 UTP binding site [chemical binding]; other site 627192006535 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 627192006536 active site 627192006537 putative oxyanion hole; other site 627192006538 catalytic triad [active] 627192006539 Preprotein translocase SecG subunit; Region: SecG; pfam03840 627192006540 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 627192006541 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 627192006542 ligand binding site [chemical binding]; other site 627192006543 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 627192006544 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 627192006545 GIY-YIG motif/motif A; other site 627192006546 active site 627192006547 catalytic site [active] 627192006548 putative DNA binding site [nucleotide binding]; other site 627192006549 metal binding site [ion binding]; metal-binding site 627192006550 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 627192006551 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 627192006552 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 627192006553 ATP synthase subunit C; Region: ATP-synt_C; cl00466 627192006554 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 627192006555 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 627192006556 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 627192006557 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 627192006558 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 627192006559 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 627192006560 hypothetical protein; Reviewed; Region: PRK00024 627192006561 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 627192006562 MPN+ (JAMM) motif; other site 627192006563 Zinc-binding site [ion binding]; other site 627192006564 EF-hand domain pair; Region: EF_hand_5; pfam13499 627192006565 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 627192006566 Ca2+ binding site [ion binding]; other site 627192006567 adenylosuccinate lyase; Provisional; Region: PRK07492 627192006568 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 627192006569 tetramer interface [polypeptide binding]; other site 627192006570 active site 627192006571 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 627192006572 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 627192006573 active site 627192006574 dimer interface [polypeptide binding]; other site 627192006575 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 627192006576 conserved hypothetical protein; Region: MG423; TIGR00649 627192006577 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 627192006578 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 627192006579 pantothenate kinase; Reviewed; Region: PRK13318 627192006580 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 627192006581 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 627192006582 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 627192006583 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 627192006584 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 627192006585 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 627192006586 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 627192006587 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 627192006588 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 627192006589 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 627192006590 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 627192006591 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 627192006592 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 627192006593 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 627192006594 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 627192006595 4Fe-4S binding domain; Region: Fer4; pfam00037 627192006596 4Fe-4S binding domain; Region: Fer4; pfam00037 627192006597 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 627192006598 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 627192006599 NADH dehydrogenase subunit G; Validated; Region: PRK09130 627192006600 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 627192006601 catalytic loop [active] 627192006602 iron binding site [ion binding]; other site 627192006603 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 627192006604 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 627192006605 molybdopterin cofactor binding site; other site 627192006606 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 627192006607 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 627192006608 SLBB domain; Region: SLBB; pfam10531 627192006609 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 627192006610 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 627192006611 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 627192006612 putative dimer interface [polypeptide binding]; other site 627192006613 [2Fe-2S] cluster binding site [ion binding]; other site 627192006614 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192006615 NADH dehydrogenase subunit D; Validated; Region: PRK06075 627192006616 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 627192006617 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 627192006618 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 627192006619 NADH dehydrogenase subunit B; Validated; Region: PRK06411 627192006620 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 627192006621 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 627192006622 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 627192006623 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 627192006624 heme binding site [chemical binding]; other site 627192006625 ferroxidase pore; other site 627192006626 ferroxidase diiron center [ion binding]; other site 627192006627 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 627192006628 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 627192006629 active site 627192006630 dimerization interface [polypeptide binding]; other site 627192006631 elongation factor P; Validated; Region: PRK00529 627192006632 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 627192006633 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 627192006634 RNA binding site [nucleotide binding]; other site 627192006635 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 627192006636 RNA binding site [nucleotide binding]; other site 627192006637 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192006638 Repair protein; Region: Repair_PSII; pfam04536 627192006639 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 627192006640 thiamine phosphate binding site [chemical binding]; other site 627192006641 active site 627192006642 pyrophosphate binding site [ion binding]; other site 627192006643 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 627192006644 catalytic residues [active] 627192006645 dimer interface [polypeptide binding]; other site 627192006646 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 627192006647 catalytic residue [active] 627192006648 Phosphoglycerate kinase; Region: PGK; pfam00162 627192006649 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 627192006650 substrate binding site [chemical binding]; other site 627192006651 hinge regions; other site 627192006652 ADP binding site [chemical binding]; other site 627192006653 catalytic site [active] 627192006654 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 627192006655 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 627192006656 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 627192006657 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 627192006658 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 627192006659 TPP-binding site [chemical binding]; other site 627192006660 dimer interface [polypeptide binding]; other site 627192006661 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 627192006662 PYR/PP interface [polypeptide binding]; other site 627192006663 dimer interface [polypeptide binding]; other site 627192006664 TPP binding site [chemical binding]; other site 627192006665 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 627192006666 Cell division protein ZapA; Region: ZapA; pfam05164 627192006667 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 627192006668 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 627192006669 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 627192006670 Domain of unknown function DUF20; Region: UPF0118; pfam01594 627192006671 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 627192006672 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 627192006673 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 627192006674 dimerization interface [polypeptide binding]; other site 627192006675 active site 627192006676 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 627192006677 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 627192006678 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 627192006679 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 627192006680 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 627192006681 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 627192006682 FeS/SAM binding site; other site 627192006683 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 627192006684 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 627192006685 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 627192006686 P loop; other site 627192006687 GTP binding site [chemical binding]; other site 627192006688 Intracellular septation protein A; Region: IspA; pfam04279 627192006689 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 627192006690 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 627192006691 S-adenosylmethionine binding site [chemical binding]; other site 627192006692 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 627192006693 PLD-like domain; Region: PLDc_2; pfam13091 627192006694 putative active site [active] 627192006695 catalytic site [active] 627192006696 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 627192006697 PLD-like domain; Region: PLDc_2; pfam13091 627192006698 putative active site [active] 627192006699 catalytic site [active] 627192006700 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 627192006701 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 627192006702 FtsH Extracellular; Region: FtsH_ext; pfam06480 627192006703 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 627192006704 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 627192006705 Walker A motif; other site 627192006706 ATP binding site [chemical binding]; other site 627192006707 Walker B motif; other site 627192006708 arginine finger; other site 627192006709 Peptidase family M41; Region: Peptidase_M41; pfam01434 627192006710 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 627192006711 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 627192006712 Ligand Binding Site [chemical binding]; other site 627192006713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 627192006714 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 627192006715 non-specific DNA binding site [nucleotide binding]; other site 627192006716 salt bridge; other site 627192006717 sequence-specific DNA binding site [nucleotide binding]; other site 627192006718 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 627192006719 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 627192006720 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 627192006721 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 627192006722 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 627192006723 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 627192006724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192006725 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 627192006726 putative substrate translocation pore; other site 627192006727 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 627192006728 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 627192006729 homotetramer interface [polypeptide binding]; other site 627192006730 ligand binding site [chemical binding]; other site 627192006731 catalytic site [active] 627192006732 NAD binding site [chemical binding]; other site 627192006733 hypothetical protein; Validated; Region: PRK00228 627192006734 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 627192006735 catalytic triad [active] 627192006736 dimer interface [polypeptide binding]; other site 627192006737 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 627192006738 AMP nucleosidase; Provisional; Region: PRK08292 627192006739 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 627192006740 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 627192006741 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 627192006742 active site 627192006743 Zn binding site [ion binding]; other site 627192006744 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 627192006745 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192006746 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192006747 MarR family; Region: MarR_2; pfam12802 627192006748 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 627192006749 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192006750 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192006751 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 627192006752 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 627192006753 putative substrate translocation pore; other site 627192006754 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 627192006755 Uncharacterized conserved protein [Function unknown]; Region: COG1284 627192006756 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 627192006757 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 627192006758 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 627192006759 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 627192006760 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 627192006761 DNA binding residues [nucleotide binding] 627192006762 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 627192006763 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192006764 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 627192006765 active site 627192006766 metal binding site [ion binding]; metal-binding site 627192006767 Tetratricopeptide repeat; Region: TPR_16; pfam13432 627192006768 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 627192006769 TPR motif; other site 627192006770 binding surface 627192006771 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 627192006772 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 627192006773 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 627192006774 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 627192006775 oligomeric interface; other site 627192006776 putative active site [active] 627192006777 homodimer interface [polypeptide binding]; other site 627192006778 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 627192006779 Beta-lactamase; Region: Beta-lactamase; pfam00144 627192006780 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 627192006781 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 627192006782 RimM N-terminal domain; Region: RimM; pfam01782 627192006783 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 627192006784 signal recognition particle protein; Provisional; Region: PRK10867 627192006785 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 627192006786 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 627192006787 P loop; other site 627192006788 GTP binding site [chemical binding]; other site 627192006789 Signal peptide binding domain; Region: SRP_SPB; pfam02978 627192006790 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 627192006791 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 627192006792 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 627192006793 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 627192006794 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 627192006795 putative substrate translocation pore; other site 627192006796 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 627192006797 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 627192006798 active site 627192006799 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 627192006800 catalytic triad [active] 627192006801 dimer interface [polypeptide binding]; other site 627192006802 Protein of unknown function (DUF952); Region: DUF952; cl01393 627192006803 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 627192006804 Glucose inhibited division protein A; Region: GIDA; pfam01134 627192006805 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 627192006806 EF-hand domain pair; Region: EF_hand_5; pfam13499 627192006807 Ca2+ binding site [ion binding]; other site 627192006808 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 627192006809 Ca2+ binding site [ion binding]; other site 627192006810 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 627192006811 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 627192006812 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 627192006813 TadE-like protein; Region: TadE; pfam07811 627192006814 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 627192006815 TadE-like protein; Region: TadE; pfam07811 627192006816 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 627192006817 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 627192006818 E3 interaction surface; other site 627192006819 lipoyl attachment site [posttranslational modification]; other site 627192006820 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 627192006821 alpha subunit interface [polypeptide binding]; other site 627192006822 TPP binding site [chemical binding]; other site 627192006823 heterodimer interface [polypeptide binding]; other site 627192006824 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 627192006825 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 627192006826 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 627192006827 tetramer interface [polypeptide binding]; other site 627192006828 TPP-binding site [chemical binding]; other site 627192006829 heterodimer interface [polypeptide binding]; other site 627192006830 phosphorylation loop region [posttranslational modification] 627192006831 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 627192006832 Septum formation initiator; Region: DivIC; pfam04977 627192006833 enolase; Provisional; Region: eno; PRK00077 627192006834 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 627192006835 dimer interface [polypeptide binding]; other site 627192006836 metal binding site [ion binding]; metal-binding site 627192006837 substrate binding pocket [chemical binding]; other site 627192006838 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 627192006839 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 627192006840 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 627192006841 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 627192006842 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 627192006843 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 627192006844 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 627192006845 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 627192006846 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 627192006847 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 627192006848 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 627192006849 ATP-grasp domain; Region: ATP-grasp_4; cl17255 627192006850 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 627192006851 IMP binding site; other site 627192006852 dimer interface [polypeptide binding]; other site 627192006853 partial ornithine binding site; other site 627192006854 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 627192006855 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 627192006856 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 627192006857 catalytic site [active] 627192006858 subunit interface [polypeptide binding]; other site 627192006859 Yqey-like protein; Region: YqeY; cl17540 627192006860 PEP-CTERM motif; Region: VPEP; pfam07589 627192006861 DNA primase; Validated; Region: dnaG; PRK05667 627192006862 CHC2 zinc finger; Region: zf-CHC2; pfam01807 627192006863 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 627192006864 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 627192006865 active site 627192006866 metal binding site [ion binding]; metal-binding site 627192006867 interdomain interaction site; other site 627192006868 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 627192006869 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 627192006870 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 627192006871 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 627192006872 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192006873 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 627192006874 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 627192006875 DNA binding residues [nucleotide binding] 627192006876 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192006877 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 627192006878 PemK-like protein; Region: PemK; cl00995 627192006879 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 627192006880 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 627192006881 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 627192006882 putative heme binding site [chemical binding]; other site 627192006883 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 627192006884 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 627192006885 active site 627192006886 HIGH motif; other site 627192006887 dimer interface [polypeptide binding]; other site 627192006888 KMSKS motif; other site 627192006889 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 627192006890 RNA binding surface [nucleotide binding]; other site 627192006891 PilZ domain; Region: PilZ; pfam07238 627192006892 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 627192006893 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 627192006894 ssDNA binding site; other site 627192006895 generic binding surface II; other site 627192006896 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 627192006897 ATP binding site [chemical binding]; other site 627192006898 putative Mg++ binding site [ion binding]; other site 627192006899 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 627192006900 nucleotide binding region [chemical binding]; other site 627192006901 ATP-binding site [chemical binding]; other site 627192006902 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 627192006903 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 627192006904 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 627192006905 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 627192006906 ATP binding site [chemical binding]; other site 627192006907 putative Mg++ binding site [ion binding]; other site 627192006908 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 627192006909 nucleotide binding region [chemical binding]; other site 627192006910 ATP-binding site [chemical binding]; other site 627192006911 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 627192006912 LrgA family; Region: LrgA; pfam03788 627192006913 LrgB-like family; Region: LrgB; pfam04172 627192006914 Domain of unknown function DUF87; Region: DUF87; pfam01935 627192006915 HerA helicase [Replication, recombination, and repair]; Region: COG0433 627192006916 Zonular occludens toxin (Zot); Region: Zot; cl17485 627192006917 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 627192006918 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 627192006919 ATP binding site [chemical binding]; other site 627192006920 putative Mg++ binding site [ion binding]; other site 627192006921 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 627192006922 nucleotide binding region [chemical binding]; other site 627192006923 ATP-binding site [chemical binding]; other site 627192006924 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 627192006925 HRDC domain; Region: HRDC; pfam00570 627192006926 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 627192006927 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 627192006928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 627192006929 Zn2+ binding site [ion binding]; other site 627192006930 Mg2+ binding site [ion binding]; other site 627192006931 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 627192006932 S-adenosylmethionine binding site [chemical binding]; other site 627192006933 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 627192006934 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 627192006935 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 627192006936 putative active site [active] 627192006937 catalytic site [active] 627192006938 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 627192006939 putative active site [active] 627192006940 catalytic site [active] 627192006941 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 627192006942 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192006943 catalytic residue [active] 627192006944 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 627192006945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192006946 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 627192006947 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 627192006948 dimer interface [polypeptide binding]; other site 627192006949 active site 627192006950 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 627192006951 catalytic residues [active] 627192006952 substrate binding site [chemical binding]; other site 627192006953 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 627192006954 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 627192006955 active site 627192006956 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 627192006957 dimer interface [polypeptide binding]; other site 627192006958 catalytic residues [active] 627192006959 substrate binding site [chemical binding]; other site 627192006960 MAPEG family; Region: MAPEG; pfam01124 627192006961 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 627192006962 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 627192006963 S-adenosylmethionine binding site [chemical binding]; other site 627192006964 Uncharacterized conserved protein [Function unknown]; Region: COG0062 627192006965 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 627192006966 putative substrate binding site [chemical binding]; other site 627192006967 putative ATP binding site [chemical binding]; other site 627192006968 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 627192006969 N-formylglutamate amidohydrolase; Region: FGase; cl01522 627192006970 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 627192006971 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 627192006972 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 627192006973 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 627192006974 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 627192006975 active site 627192006976 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 627192006977 hydroxyglutarate oxidase; Provisional; Region: PRK11728 627192006978 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 627192006979 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 627192006980 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 627192006981 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 627192006982 N-acetyl-D-glucosamine binding site [chemical binding]; other site 627192006983 catalytic residue [active] 627192006984 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 627192006985 MPT binding site; other site 627192006986 trimer interface [polypeptide binding]; other site 627192006987 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 627192006988 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 627192006989 ligand binding site [chemical binding]; other site 627192006990 prolyl-tRNA synthetase; Provisional; Region: PRK08661 627192006991 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_arch_euk; cd00778 627192006992 dimer interface [polypeptide binding]; other site 627192006993 motif 1; other site 627192006994 active site 627192006995 motif 2; other site 627192006996 motif 3; other site 627192006997 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 627192006998 anticodon binding site; other site 627192006999 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007000 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 627192007001 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 627192007002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 627192007003 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 627192007004 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 627192007005 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 627192007006 putative acyltransferase; Provisional; Region: PRK05790 627192007007 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 627192007008 dimer interface [polypeptide binding]; other site 627192007009 active site 627192007010 PAS domain; Region: PAS_9; pfam13426 627192007011 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 627192007012 putative active site [active] 627192007013 heme pocket [chemical binding]; other site 627192007014 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 627192007015 HWE histidine kinase; Region: HWE_HK; smart00911 627192007016 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 627192007017 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 627192007018 active site 627192007019 phosphorylation site [posttranslational modification] 627192007020 intermolecular recognition site; other site 627192007021 dimerization interface [polypeptide binding]; other site 627192007022 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 627192007023 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 627192007024 active site 627192007025 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 627192007026 dimer interface [polypeptide binding]; other site 627192007027 substrate binding site [chemical binding]; other site 627192007028 catalytic residues [active] 627192007029 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 627192007030 putative substrate translocation pore; other site 627192007031 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 627192007032 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 627192007033 ATP-grasp domain; Region: ATP-grasp_4; cl17255 627192007034 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 627192007035 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 627192007036 carboxyltransferase (CT) interaction site; other site 627192007037 biotinylation site [posttranslational modification]; other site 627192007038 biotin synthase; Region: bioB; TIGR00433 627192007039 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 627192007040 FeS/SAM binding site; other site 627192007041 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 627192007042 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 627192007043 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 627192007044 homodimer interface [polypeptide binding]; other site 627192007045 substrate-cofactor binding pocket; other site 627192007046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192007047 catalytic residue [active] 627192007048 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 627192007049 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 627192007050 active site 627192007051 substrate binding site [chemical binding]; other site 627192007052 coenzyme B12 binding site [chemical binding]; other site 627192007053 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 627192007054 B12 binding site [chemical binding]; other site 627192007055 cobalt ligand [ion binding]; other site 627192007056 enoyl-CoA hydratase; Provisional; Region: PRK08140 627192007057 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 627192007058 substrate binding site [chemical binding]; other site 627192007059 oxyanion hole (OAH) forming residues; other site 627192007060 trimer interface [polypeptide binding]; other site 627192007061 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192007062 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 627192007063 dimer interface [polypeptide binding]; other site 627192007064 substrate binding site [chemical binding]; other site 627192007065 metal binding site [ion binding]; metal-binding site 627192007066 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 627192007067 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 627192007068 dimer interface [polypeptide binding]; other site 627192007069 active site 627192007070 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 627192007071 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 627192007072 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 627192007073 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 627192007074 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 627192007075 non-specific DNA binding site [nucleotide binding]; other site 627192007076 salt bridge; other site 627192007077 sequence-specific DNA binding site [nucleotide binding]; other site 627192007078 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 627192007079 Domain of unknown function (DUF955); Region: DUF955; pfam06114 627192007080 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 627192007081 glutathione reductase; Validated; Region: PRK06116 627192007082 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192007083 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192007084 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 627192007085 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 627192007086 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 627192007087 active site 627192007088 dimer interface [polypeptide binding]; other site 627192007089 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 627192007090 dimer interface [polypeptide binding]; other site 627192007091 active site 627192007092 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 627192007093 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 627192007094 Catalytic site [active] 627192007095 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 627192007096 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 627192007097 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 627192007098 dimerization interface [polypeptide binding]; other site 627192007099 active site 627192007100 metal binding site [ion binding]; metal-binding site 627192007101 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 627192007102 dsRNA binding site [nucleotide binding]; other site 627192007103 GTPase Era; Reviewed; Region: era; PRK00089 627192007104 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 627192007105 G1 box; other site 627192007106 GTP/Mg2+ binding site [chemical binding]; other site 627192007107 Switch I region; other site 627192007108 G2 box; other site 627192007109 Switch II region; other site 627192007110 G3 box; other site 627192007111 G4 box; other site 627192007112 G5 box; other site 627192007113 KH domain; Region: KH_2; pfam07650 627192007114 G-X-X-G motif; other site 627192007115 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192007116 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 627192007117 putative C-terminal domain interface [polypeptide binding]; other site 627192007118 putative GSH binding site (G-site) [chemical binding]; other site 627192007119 putative dimer interface [polypeptide binding]; other site 627192007120 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 627192007121 putative N-terminal domain interface [polypeptide binding]; other site 627192007122 putative dimer interface [polypeptide binding]; other site 627192007123 putative substrate binding pocket (H-site) [chemical binding]; other site 627192007124 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 627192007125 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 627192007126 TrkA-N domain; Region: TrkA_N; pfam02254 627192007127 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 627192007128 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 627192007129 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 627192007130 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 627192007131 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 627192007132 dimer interaction site [polypeptide binding]; other site 627192007133 substrate-binding tunnel; other site 627192007134 active site 627192007135 catalytic site [active] 627192007136 substrate binding site [chemical binding]; other site 627192007137 phosphate acetyltransferase; Provisional; Region: PRK11890 627192007138 Acetokinase family; Region: Acetate_kinase; cl17229 627192007139 propionate/acetate kinase; Provisional; Region: PRK12379 627192007140 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 627192007141 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 627192007142 Moco binding site; other site 627192007143 metal coordination site [ion binding]; other site 627192007144 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192007145 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 627192007146 dimer interface [polypeptide binding]; other site 627192007147 putative metal binding site [ion binding]; other site 627192007148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192007149 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 627192007150 NAD(P) binding site [chemical binding]; other site 627192007151 active site 627192007152 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 627192007153 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 627192007154 catalytic Zn binding site [ion binding]; other site 627192007155 NAD binding site [chemical binding]; other site 627192007156 structural Zn binding site [ion binding]; other site 627192007157 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 627192007158 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 627192007159 putative NAD(P) binding site [chemical binding]; other site 627192007160 catalytic Zn binding site [ion binding]; other site 627192007161 benzoylformate decarboxylase; Reviewed; Region: PRK07092 627192007162 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 627192007163 PYR/PP interface [polypeptide binding]; other site 627192007164 dimer interface [polypeptide binding]; other site 627192007165 TPP binding site [chemical binding]; other site 627192007166 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 627192007167 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 627192007168 TPP-binding site [chemical binding]; other site 627192007169 dimer interface [polypeptide binding]; other site 627192007170 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 627192007171 Transcriptional regulator [Transcription]; Region: IclR; COG1414 627192007172 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 627192007173 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192007174 Cupin domain; Region: Cupin_2; pfam07883 627192007175 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 627192007176 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 627192007177 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 627192007178 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 627192007179 CoA binding domain; Region: CoA_binding_2; pfam13380 627192007180 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 627192007181 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 627192007182 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 627192007183 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 627192007184 substrate binding site [chemical binding]; other site 627192007185 oxyanion hole (OAH) forming residues; other site 627192007186 trimer interface [polypeptide binding]; other site 627192007187 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192007188 MarR family; Region: MarR_2; pfam12802 627192007189 YHS domain; Region: YHS; pfam04945 627192007190 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 627192007191 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 627192007192 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 627192007193 motif II; other site 627192007194 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192007195 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192007196 Sulfatase; Region: Sulfatase; pfam00884 627192007197 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 627192007198 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192007199 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 627192007200 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 627192007201 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007202 Secretin and TonB N terminus short domain; Region: STN; smart00965 627192007203 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 627192007204 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 627192007205 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 627192007206 FecR protein; Region: FecR; pfam04773 627192007207 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 627192007208 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 627192007209 DNA binding residues [nucleotide binding] 627192007210 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 627192007211 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 627192007212 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007213 Predicted transcriptional regulator [Transcription]; Region: COG1959 627192007214 Transcriptional regulator; Region: Rrf2; pfam02082 627192007215 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 627192007216 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 627192007217 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 627192007218 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 627192007219 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 627192007220 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 627192007221 Soluble P-type ATPase [General function prediction only]; Region: COG4087 627192007222 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 627192007223 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 627192007224 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 627192007225 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 627192007226 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 627192007227 DNA binding site [nucleotide binding] 627192007228 active site 627192007229 LexA repressor; Validated; Region: PRK00215 627192007230 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 627192007231 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 627192007232 Catalytic site [active] 627192007233 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 627192007234 Competence protein; Region: Competence; pfam03772 627192007235 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 627192007236 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192007237 active site 627192007238 HIGH motif; other site 627192007239 nucleotide binding site [chemical binding]; other site 627192007240 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 627192007241 active site 627192007242 KMSKS motif; other site 627192007243 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 627192007244 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 627192007245 dimer interface [polypeptide binding]; other site 627192007246 active site 627192007247 citrylCoA binding site [chemical binding]; other site 627192007248 NADH binding [chemical binding]; other site 627192007249 cationic pore residues; other site 627192007250 oxalacetate/citrate binding site [chemical binding]; other site 627192007251 coenzyme A binding site [chemical binding]; other site 627192007252 catalytic triad [active] 627192007253 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 627192007254 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 627192007255 active site 627192007256 catalytic residues [active] 627192007257 metal binding site [ion binding]; metal-binding site 627192007258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 627192007259 Predicted kinase [General function prediction only]; Region: COG0645 627192007260 AAA domain; Region: AAA_17; cl17253 627192007261 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 627192007262 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 627192007263 putative NAD(P) binding site [chemical binding]; other site 627192007264 putative substrate binding site [chemical binding]; other site 627192007265 catalytic Zn binding site [ion binding]; other site 627192007266 structural Zn binding site [ion binding]; other site 627192007267 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 627192007268 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 627192007269 NAD binding site [chemical binding]; other site 627192007270 homotetramer interface [polypeptide binding]; other site 627192007271 homodimer interface [polypeptide binding]; other site 627192007272 substrate binding site [chemical binding]; other site 627192007273 active site 627192007274 recombination protein RecR; Reviewed; Region: recR; PRK00076 627192007275 RecR protein; Region: RecR; pfam02132 627192007276 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 627192007277 putative active site [active] 627192007278 putative metal-binding site [ion binding]; other site 627192007279 tetramer interface [polypeptide binding]; other site 627192007280 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 627192007281 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 627192007282 putative active site [active] 627192007283 substrate binding site [chemical binding]; other site 627192007284 putative cosubstrate binding site; other site 627192007285 catalytic site [active] 627192007286 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 627192007287 substrate binding site [chemical binding]; other site 627192007288 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 627192007289 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 627192007290 dimerization interface 3.5A [polypeptide binding]; other site 627192007291 active site 627192007292 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 627192007293 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 627192007294 active site 627192007295 dimer interface [polypeptide binding]; other site 627192007296 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 627192007297 Ligand Binding Site [chemical binding]; other site 627192007298 Molecular Tunnel; other site 627192007299 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 627192007300 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 627192007301 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 627192007302 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 627192007303 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 627192007304 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 627192007305 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 627192007306 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 627192007307 putative active site [active] 627192007308 putative catalytic site [active] 627192007309 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 627192007310 AAA ATPase domain; Region: AAA_16; pfam13191 627192007311 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 627192007312 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 627192007313 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 627192007314 Chain length determinant protein; Region: Wzz; cl15801 627192007315 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 627192007316 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 627192007317 SLBB domain; Region: SLBB; pfam10531 627192007318 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 627192007319 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 627192007320 dimer interface [polypeptide binding]; other site 627192007321 active site 627192007322 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 627192007323 catalytic residues [active] 627192007324 substrate binding site [chemical binding]; other site 627192007325 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 627192007326 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 627192007327 acyl-activating enzyme (AAE) consensus motif; other site 627192007328 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 627192007329 acyl-activating enzyme (AAE) consensus motif; other site 627192007330 AMP binding site [chemical binding]; other site 627192007331 active site 627192007332 CoA binding site [chemical binding]; other site 627192007333 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 627192007334 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 627192007335 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192007336 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192007337 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 627192007338 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 627192007339 dimer interface [polypeptide binding]; other site 627192007340 active site 627192007341 heme binding site [chemical binding]; other site 627192007342 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 627192007343 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 627192007344 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 627192007345 active site 627192007346 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 627192007347 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 627192007348 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 627192007349 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 627192007350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 627192007351 Uncharacterized conserved protein [Function unknown]; Region: COG2308 627192007352 2-isopropylmalate synthase; Validated; Region: PRK03739 627192007353 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 627192007354 active site 627192007355 catalytic residues [active] 627192007356 metal binding site [ion binding]; metal-binding site 627192007357 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 627192007358 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 627192007359 catalytic nucleophile [active] 627192007360 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 627192007361 N-terminal plug; other site 627192007362 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 627192007363 ligand-binding site [chemical binding]; other site 627192007364 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 627192007365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192007366 HD domain; Region: HD; pfam01966 627192007367 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 627192007368 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 627192007369 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 627192007370 dimerization interface [polypeptide binding]; other site 627192007371 putative DNA binding site [nucleotide binding]; other site 627192007372 putative Zn2+ binding site [ion binding]; other site 627192007373 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 627192007374 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 627192007375 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192007376 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 627192007377 active site residue [active] 627192007378 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 627192007379 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 627192007380 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 627192007381 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 627192007382 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 627192007383 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 627192007384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192007385 homodimer interface [polypeptide binding]; other site 627192007386 catalytic residue [active] 627192007387 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 627192007388 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 627192007389 putative DNA binding site [nucleotide binding]; other site 627192007390 putative Zn2+ binding site [ion binding]; other site 627192007391 AsnC family; Region: AsnC_trans_reg; pfam01037 627192007392 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 627192007393 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 627192007394 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 627192007395 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 627192007396 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 627192007397 motif II; other site 627192007398 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 627192007399 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 627192007400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192007401 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 627192007402 dimerization interface [polypeptide binding]; other site 627192007403 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 627192007404 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 627192007405 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 627192007406 homodimer interface [polypeptide binding]; other site 627192007407 substrate-cofactor binding pocket; other site 627192007408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192007409 catalytic residue [active] 627192007410 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 627192007411 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 627192007412 hypothetical protein; Provisional; Region: PRK06110 627192007413 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192007414 catalytic residue [active] 627192007415 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 627192007416 tartrate dehydrogenase; Region: TTC; TIGR02089 627192007417 Recombination protein O N terminal; Region: RecO_N; pfam11967 627192007418 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 627192007419 Recombination protein O C terminal; Region: RecO_C; pfam02565 627192007420 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 627192007421 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 627192007422 triosephosphate isomerase; Provisional; Region: PRK14565 627192007423 substrate binding site [chemical binding]; other site 627192007424 dimer interface [polypeptide binding]; other site 627192007425 catalytic triad [active] 627192007426 SurA N-terminal domain; Region: SurA_N_3; cl07813 627192007427 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 627192007428 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 627192007429 anthranilate synthase component I; Provisional; Region: PRK13573 627192007430 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 627192007431 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 627192007432 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 627192007433 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 627192007434 S-adenosylmethionine binding site [chemical binding]; other site 627192007435 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 627192007436 active site 627192007437 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 627192007438 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 627192007439 glutamine binding [chemical binding]; other site 627192007440 catalytic triad [active] 627192007441 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192007442 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 627192007443 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 627192007444 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 627192007445 active site 627192007446 ribulose/triose binding site [chemical binding]; other site 627192007447 phosphate binding site [ion binding]; other site 627192007448 substrate (anthranilate) binding pocket [chemical binding]; other site 627192007449 product (indole) binding pocket [chemical binding]; other site 627192007450 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 627192007451 trimer interface [polypeptide binding]; other site 627192007452 dimer interface [polypeptide binding]; other site 627192007453 putative active site [active] 627192007454 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 627192007455 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 627192007456 dimer interface [polypeptide binding]; other site 627192007457 putative functional site; other site 627192007458 putative MPT binding site; other site 627192007459 integrase; Provisional; Region: PRK09692 627192007460 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 627192007461 active site 627192007462 Int/Topo IB signature motif; other site 627192007463 Helix-turn-helix domain; Region: HTH_17; cl17695 627192007464 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 627192007465 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 627192007466 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 627192007467 VirB7 interaction site; other site 627192007468 conjugal transfer protein TrbF; Provisional; Region: PRK13872 627192007469 conjugal transfer protein TrbL; Provisional; Region: PRK13875 627192007470 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 627192007471 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 627192007472 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 627192007473 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 627192007474 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192007475 Walker B; other site 627192007476 D-loop; other site 627192007477 H-loop/switch region; other site 627192007478 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 627192007479 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 627192007480 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 627192007481 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 627192007482 ATP binding site [chemical binding]; other site 627192007483 Walker A motif; other site 627192007484 hexamer interface [polypeptide binding]; other site 627192007485 Walker B motif; other site 627192007486 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 627192007487 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 627192007488 Walker A motif; other site 627192007489 ATP binding site [chemical binding]; other site 627192007490 Walker B motif; other site 627192007491 RES domain; Region: RES; pfam08808 627192007492 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 627192007493 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 627192007494 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 627192007495 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 627192007496 N-acetyl-D-glucosamine binding site [chemical binding]; other site 627192007497 catalytic residue [active] 627192007498 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 627192007499 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 627192007500 Helix-turn-helix domain; Region: HTH_17; pfam12728 627192007501 Protein of unknown function (DUF736); Region: DUF736; pfam05284 627192007502 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 627192007503 ParB-like nuclease domain; Region: ParBc; pfam02195 627192007504 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 627192007505 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 627192007506 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 627192007507 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 627192007508 Autoinducer binding domain; Region: Autoind_bind; pfam03472 627192007509 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 627192007510 DNA binding residues [nucleotide binding] 627192007511 dimerization interface [polypeptide binding]; other site 627192007512 Autoinducer synthetase; Region: Autoind_synth; cl17404 627192007513 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 627192007514 Transcriptional regulators [Transcription]; Region: GntR; COG1802 627192007515 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192007516 DNA-binding site [nucleotide binding]; DNA binding site 627192007517 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 627192007518 putative catalytic site [active] 627192007519 putative phosphate binding site [ion binding]; other site 627192007520 active site 627192007521 metal binding site A [ion binding]; metal-binding site 627192007522 DNA binding site [nucleotide binding] 627192007523 putative AP binding site [nucleotide binding]; other site 627192007524 putative metal binding site B [ion binding]; other site 627192007525 Integrase core domain; Region: rve; pfam00665 627192007526 Integrase core domain; Region: rve_3; cl15866 627192007527 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192007528 T5orf172 domain; Region: T5orf172; cl17462 627192007529 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 627192007530 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192007531 MarR family; Region: MarR_2; pfam12802 627192007532 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 627192007533 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 627192007534 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007535 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 627192007536 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 627192007537 hypothetical protein; Provisional; Region: PRK11019 627192007538 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 627192007539 Tetratricopeptide repeat; Region: TPR_9; pfam13371 627192007540 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 627192007541 putative catalytic site [active] 627192007542 putative metal binding site [ion binding]; other site 627192007543 putative phosphate binding site [ion binding]; other site 627192007544 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 627192007545 Uncharacterized conserved protein [Function unknown]; Region: COG2135 627192007546 Uncharacterized conserved protein [Function unknown]; Region: COG4544 627192007547 DNA Polymerase Y-family; Region: PolY_like; cd03468 627192007548 active site 627192007549 DNA binding site [nucleotide binding] 627192007550 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 627192007551 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 627192007552 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 627192007553 putative active site [active] 627192007554 putative PHP Thumb interface [polypeptide binding]; other site 627192007555 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 627192007556 generic binding surface I; other site 627192007557 generic binding surface II; other site 627192007558 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 627192007559 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 627192007560 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 627192007561 Catalytic site; other site 627192007562 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 627192007563 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 627192007564 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 627192007565 FeS/SAM binding site; other site 627192007566 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 627192007567 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 627192007568 FeS/SAM binding site; other site 627192007569 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 627192007570 potential frameshift: common BLAST hit: gi|146277852|ref|YP_001168011.1| integrase catalytic subunit 627192007571 Integrase core domain; Region: rve; pfam00665 627192007572 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 627192007573 Transposase; Region: HTH_Tnp_1; pfam01527 627192007574 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 627192007575 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 627192007576 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 627192007577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 627192007578 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 627192007579 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 627192007580 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 627192007581 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 627192007582 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 627192007583 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 627192007584 ring oligomerisation interface [polypeptide binding]; other site 627192007585 ATP/Mg binding site [chemical binding]; other site 627192007586 stacking interactions; other site 627192007587 hinge regions; other site 627192007588 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 627192007589 oligomerisation interface [polypeptide binding]; other site 627192007590 mobile loop; other site 627192007591 roof hairpin; other site 627192007592 Usg-like family; Region: Usg; pfam06233 627192007593 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 627192007594 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 627192007595 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 627192007596 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 627192007597 putative dimer interface [polypeptide binding]; other site 627192007598 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 627192007599 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 627192007600 putative dimer interface [polypeptide binding]; other site 627192007601 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 627192007602 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 627192007603 cofactor binding site; other site 627192007604 DNA binding site [nucleotide binding] 627192007605 substrate interaction site [chemical binding]; other site 627192007606 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 627192007607 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 627192007608 additional DNA contacts [nucleotide binding]; other site 627192007609 mismatch recognition site; other site 627192007610 active site 627192007611 zinc binding site [ion binding]; other site 627192007612 DNA intercalation site [nucleotide binding]; other site 627192007613 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 627192007614 conjugal transfer protein TraL; Provisional; Region: PRK13886 627192007615 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 627192007616 active site 627192007617 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 627192007618 active site 627192007619 NTP binding site [chemical binding]; other site 627192007620 metal binding triad [ion binding]; metal-binding site 627192007621 antibiotic binding site [chemical binding]; other site 627192007622 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 627192007623 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 627192007624 DNA binding residues [nucleotide binding] 627192007625 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 627192007626 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192007627 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 627192007628 DNA binding residues [nucleotide binding] 627192007629 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 627192007630 FecR protein; Region: FecR; pfam04773 627192007631 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007632 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 627192007633 N-terminal plug; other site 627192007634 ligand-binding site [chemical binding]; other site 627192007635 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 627192007636 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 627192007637 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192007638 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 627192007639 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 627192007640 Ligand Binding Site [chemical binding]; other site 627192007641 Molecular Tunnel; other site 627192007642 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 627192007643 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 627192007644 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 627192007645 Fic/DOC family; Region: Fic; pfam02661 627192007646 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 627192007647 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 627192007648 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 627192007649 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 627192007650 Cytochrome c; Region: Cytochrom_C; cl11414 627192007651 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 627192007652 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 627192007653 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 627192007654 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 627192007655 putative active site [active] 627192007656 putative NTP binding site [chemical binding]; other site 627192007657 putative nucleic acid binding site [nucleotide binding]; other site 627192007658 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 627192007659 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 627192007660 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 627192007661 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192007662 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 627192007663 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 627192007664 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 627192007665 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 627192007666 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 627192007667 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 627192007668 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 627192007669 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 627192007670 FtsX-like permease family; Region: FtsX; pfam02687 627192007671 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 627192007672 FtsX-like permease family; Region: FtsX; pfam02687 627192007673 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 627192007674 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 627192007675 Walker A/P-loop; other site 627192007676 ATP binding site [chemical binding]; other site 627192007677 Q-loop/lid; other site 627192007678 ABC transporter signature motif; other site 627192007679 Walker B; other site 627192007680 D-loop; other site 627192007681 H-loop/switch region; other site 627192007682 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 627192007683 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192007684 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192007685 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 627192007686 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 627192007687 active site 627192007688 phosphorylation site [posttranslational modification] 627192007689 intermolecular recognition site; other site 627192007690 dimerization interface [polypeptide binding]; other site 627192007691 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 627192007692 Walker A motif; other site 627192007693 ATP binding site [chemical binding]; other site 627192007694 Walker B motif; other site 627192007695 arginine finger; other site 627192007696 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 627192007697 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 627192007698 substrate binding site [chemical binding]; other site 627192007699 THF binding site; other site 627192007700 zinc-binding site [ion binding]; other site 627192007701 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 627192007702 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 627192007703 dimerization interface [polypeptide binding]; other site 627192007704 putative DNA binding site [nucleotide binding]; other site 627192007705 putative Zn2+ binding site [ion binding]; other site 627192007706 Methyltransferase domain; Region: Methyltransf_31; pfam13847 627192007707 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 627192007708 S-adenosylmethionine binding site [chemical binding]; other site 627192007709 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 627192007710 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192007711 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 627192007712 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 627192007713 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192007714 NAD(P) binding site [chemical binding]; other site 627192007715 catalytic residues [active] 627192007716 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 627192007717 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 627192007718 NAD binding site [chemical binding]; other site 627192007719 substrate binding site [chemical binding]; other site 627192007720 catalytic Zn binding site [ion binding]; other site 627192007721 tetramer interface [polypeptide binding]; other site 627192007722 structural Zn binding site [ion binding]; other site 627192007723 Protein of unknown function (DUF779); Region: DUF779; cl01432 627192007724 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 627192007725 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 627192007726 MarR family; Region: MarR; pfam01047 627192007727 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 627192007728 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 627192007729 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 627192007730 D-galactonate transporter; Region: 2A0114; TIGR00893 627192007731 putative substrate translocation pore; other site 627192007732 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 627192007733 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192007734 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 627192007735 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 627192007736 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 627192007737 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192007739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192007740 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 627192007741 putative effector binding pocket; other site 627192007742 putative dimerization interface [polypeptide binding]; other site 627192007743 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 627192007744 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 627192007745 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 627192007746 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 627192007747 N-terminal plug; other site 627192007748 ligand-binding site [chemical binding]; other site 627192007749 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 627192007750 hypothetical protein; Provisional; Region: PRK11019 627192007751 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 627192007752 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192007753 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 627192007754 DNA binding residues [nucleotide binding] 627192007755 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 627192007756 active site 627192007757 catalytic triad [active] 627192007758 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 627192007759 benzoate transport; Region: 2A0115; TIGR00895 627192007760 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 627192007761 putative substrate translocation pore; other site 627192007762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192007763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192007764 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 627192007765 putative effector binding pocket; other site 627192007766 dimerization interface [polypeptide binding]; other site 627192007767 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 627192007768 active site 627192007769 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 627192007770 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192007771 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 627192007772 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 627192007773 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 627192007774 putative NAD(P) binding site [chemical binding]; other site 627192007775 protochlorophyllide reductase; Region: PLN00015 627192007776 active site 627192007777 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192007778 MarR family; Region: MarR_2; pfam12802 627192007779 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192007780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192007781 NAD(P) binding site [chemical binding]; other site 627192007782 active site 627192007783 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 627192007784 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 627192007785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192007786 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 627192007787 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 627192007788 putative substrate translocation pore; other site 627192007789 MltA-interacting protein MipA; Region: MipA; cl01504 627192007790 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 627192007791 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192007792 putative NAD(P) binding site [chemical binding]; other site 627192007793 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 627192007794 salt bridge; other site 627192007795 non-specific DNA binding site [nucleotide binding]; other site 627192007796 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 627192007797 sequence-specific DNA binding site [nucleotide binding]; other site 627192007798 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192007799 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 627192007800 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 627192007801 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007802 benzoate transport; Region: 2A0115; TIGR00895 627192007803 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 627192007804 putative substrate translocation pore; other site 627192007805 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192007806 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 627192007807 Predicted aconitase [General function prediction only]; Region: COG1679 627192007808 Protein of unknown function (DUF521); Region: DUF521; pfam04412 627192007809 Protein of unknown function DUF126; Region: DUF126; pfam01989 627192007810 substrate binding site [chemical binding]; other site 627192007811 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192007812 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007813 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 627192007814 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 627192007815 putative substrate translocation pore; other site 627192007816 hypothetical protein; Provisional; Region: PRK06154 627192007817 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 627192007818 PYR/PP interface [polypeptide binding]; other site 627192007819 dimer interface [polypeptide binding]; other site 627192007820 TPP binding site [chemical binding]; other site 627192007821 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 627192007822 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 627192007823 TPP-binding site; other site 627192007824 dimer interface [polypeptide binding]; other site 627192007825 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 627192007826 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 627192007827 active site 627192007828 iron coordination sites [ion binding]; other site 627192007829 substrate binding pocket [chemical binding]; other site 627192007830 Transcriptional regulator [Transcription]; Region: IclR; COG1414 627192007831 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 627192007832 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192007833 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 627192007834 active site 627192007835 SAM binding site [chemical binding]; other site 627192007836 homodimer interface [polypeptide binding]; other site 627192007837 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 627192007838 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 627192007839 [4Fe-4S] binding site [ion binding]; other site 627192007840 molybdopterin cofactor binding site; other site 627192007841 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 627192007842 molybdopterin cofactor binding site; other site 627192007843 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 627192007844 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 627192007845 [2Fe-2S] cluster binding site [ion binding]; other site 627192007846 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 627192007847 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192007848 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 627192007849 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 627192007850 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 627192007851 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 627192007852 putative substrate translocation pore; other site 627192007853 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 627192007854 NMT1-like family; Region: NMT1_2; pfam13379 627192007855 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 627192007856 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 627192007857 active site 627192007858 phosphorylation site [posttranslational modification] 627192007859 intermolecular recognition site; other site 627192007860 ANTAR domain; Region: ANTAR; pfam03861 627192007861 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 627192007862 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 627192007863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 627192007864 DNA-binding site [nucleotide binding]; DNA binding site 627192007865 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192007866 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 627192007867 FAD binding domain; Region: FAD_binding_4; pfam01565 627192007868 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192007869 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192007870 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 627192007871 MarR family; Region: MarR_2; pfam12802 627192007872 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 627192007873 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192007874 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 627192007875 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 627192007876 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192007877 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192007878 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 627192007879 NAD(P) binding site [chemical binding]; other site 627192007880 catalytic residues [active] 627192007881 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 627192007882 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192007883 NAD binding site [chemical binding]; other site 627192007884 catalytic residues [active] 627192007885 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007886 classical (c) SDRs; Region: SDR_c; cd05233 627192007887 NAD(P) binding site [chemical binding]; other site 627192007888 active site 627192007889 benzoate transport; Region: 2A0115; TIGR00895 627192007890 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 627192007891 putative substrate translocation pore; other site 627192007892 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192007893 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 627192007894 choline dehydrogenase; Validated; Region: PRK02106 627192007895 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 627192007896 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192007897 alkaline phosphatase; Provisional; Region: PRK10518 627192007898 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 627192007899 dimer interface [polypeptide binding]; other site 627192007900 active site 627192007901 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 627192007902 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 627192007903 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 627192007904 EthD domain; Region: EthD; cl17553 627192007905 EthD domain; Region: EthD; cl17553 627192007906 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 627192007907 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 627192007908 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 627192007909 dimer interface [polypeptide binding]; other site 627192007910 active site 627192007911 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 627192007912 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 627192007913 putative active site [active] 627192007914 metal binding site [ion binding]; metal-binding site 627192007915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192007916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192007917 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 627192007918 dimerization interface [polypeptide binding]; other site 627192007919 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 627192007920 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 627192007921 Na binding site [ion binding]; other site 627192007922 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192007923 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 627192007924 putative C-terminal domain interface [polypeptide binding]; other site 627192007925 putative GSH binding site (G-site) [chemical binding]; other site 627192007926 putative dimer interface [polypeptide binding]; other site 627192007927 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 627192007928 dimer interface [polypeptide binding]; other site 627192007929 N-terminal domain interface [polypeptide binding]; other site 627192007930 putative substrate binding pocket (H-site) [chemical binding]; other site 627192007931 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192007932 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 627192007933 active site 627192007934 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007935 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007936 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007937 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007938 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007939 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007940 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 627192007941 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 627192007942 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192007943 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007944 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007945 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192007946 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 627192007947 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 627192007948 tetrameric interface [polypeptide binding]; other site 627192007949 NAD binding site [chemical binding]; other site 627192007950 catalytic residues [active] 627192007951 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192007952 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 627192007953 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192007954 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 627192007955 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192007956 TAP-like protein; Region: Abhydrolase_4; pfam08386 627192007957 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 627192007958 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 627192007959 Transposase; Region: HTH_Tnp_1; cl17663 627192007960 Winged helix-turn helix; Region: HTH_29; pfam13551 627192007961 Integrase core domain; Region: rve; pfam00665 627192007962 Integrase core domain; Region: rve_3; pfam13683 627192007963 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 627192007964 putative hydrophobic ligand binding site [chemical binding]; other site 627192007965 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 627192007966 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 627192007967 NAD binding site [chemical binding]; other site 627192007968 catalytic Zn binding site [ion binding]; other site 627192007969 structural Zn binding site [ion binding]; other site 627192007970 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 627192007971 classical (c) SDRs; Region: SDR_c; cd05233 627192007972 NAD(P) binding site [chemical binding]; other site 627192007973 active site 627192007974 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 627192007975 Domain of unknown function (DUF377); Region: DUF377; pfam04041 627192007976 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 627192007977 active site 627192007978 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 627192007979 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192007980 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 627192007981 active site 627192007982 classical (c) SDRs; Region: SDR_c; cd05233 627192007983 NAD(P) binding site [chemical binding]; other site 627192007984 active site 627192007985 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 627192007986 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192007987 NAD binding site [chemical binding]; other site 627192007988 catalytic residues [active] 627192007989 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192007990 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 627192007991 putative C-terminal domain interface [polypeptide binding]; other site 627192007992 putative GSH binding site (G-site) [chemical binding]; other site 627192007993 putative dimer interface [polypeptide binding]; other site 627192007994 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 627192007995 N-terminal domain interface [polypeptide binding]; other site 627192007996 dimer interface [polypeptide binding]; other site 627192007997 substrate binding pocket (H-site) [chemical binding]; other site 627192007998 hypothetical protein; Provisional; Region: PRK06194 627192007999 classical (c) SDRs; Region: SDR_c; cd05233 627192008000 NAD(P) binding site [chemical binding]; other site 627192008001 active site 627192008002 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 627192008003 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 627192008004 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 627192008005 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 627192008006 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 627192008007 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 627192008008 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 627192008009 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 627192008010 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 627192008011 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 627192008012 Domain of unknown function (DUF4130; Region: DUF4130; pfam13566 627192008013 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 627192008014 Fe-S cluster binding site [ion binding]; other site 627192008015 active site 627192008016 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 627192008017 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 627192008018 FeS/SAM binding site; other site 627192008019 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; cl17355 627192008020 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192008021 DNA binding site [nucleotide binding] 627192008022 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 627192008023 Catalytic domain of Protein Kinases; Region: PKc; cd00180 627192008024 active site 627192008025 ATP binding site [chemical binding]; other site 627192008026 substrate binding site [chemical binding]; other site 627192008027 activation loop (A-loop); other site 627192008028 Suppression of tumorigenicity 7; Region: ST7; cd11557 627192008029 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192008030 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 627192008031 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192008032 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192008033 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192008034 MarR family; Region: MarR; pfam01047 627192008035 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 627192008036 putative substrate translocation pore; other site 627192008037 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192008038 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192008039 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 627192008040 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192008041 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 627192008042 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192008043 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192008044 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 627192008045 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192008046 hypothetical protein; Provisional; Region: PRK06847 627192008047 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 627192008048 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 627192008049 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 627192008050 active site 627192008051 metal binding site [ion binding]; metal-binding site 627192008052 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 627192008053 active site 627192008054 metal binding site [ion binding]; metal-binding site 627192008055 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192008056 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192008057 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 627192008058 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 627192008059 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 627192008060 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 627192008061 NADP binding site [chemical binding]; other site 627192008062 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 627192008063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192008064 DNA-binding site [nucleotide binding]; DNA binding site 627192008065 Transcriptional regulators [Transcription]; Region: FadR; COG2186 627192008066 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192008067 DNA-binding site [nucleotide binding]; DNA binding site 627192008068 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 627192008069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192008070 putative substrate translocation pore; other site 627192008071 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192008072 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 627192008073 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 627192008074 YCII-related domain; Region: YCII; cl00999 627192008075 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 627192008076 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192008077 putative substrate translocation pore; other site 627192008078 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 627192008079 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 627192008080 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192008081 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 627192008082 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 627192008083 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 627192008084 active site 627192008085 iron coordination sites [ion binding]; other site 627192008086 substrate binding pocket [chemical binding]; other site 627192008087 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 627192008088 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 627192008089 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; cl00630 627192008090 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192008091 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 627192008092 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 627192008093 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 627192008094 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192008095 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 627192008096 DNA binding residues [nucleotide binding] 627192008097 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 627192008098 FecR protein; Region: FecR; pfam04773 627192008099 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 627192008100 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 627192008101 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192008102 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192008103 Integrase core domain; Region: rve; pfam00665 627192008104 Transposase; Region: HTH_Tnp_1; cl17663 627192008105 putative transposase OrfB; Reviewed; Region: PHA02517 627192008106 HTH-like domain; Region: HTH_21; pfam13276 627192008107 Integrase core domain; Region: rve; pfam00665 627192008108 Integrase core domain; Region: rve_3; cl15866 627192008109 Methyltransferase domain; Region: Methyltransf_24; pfam13578 627192008110 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 627192008111 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 627192008112 active site 627192008113 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 627192008114 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 627192008115 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 627192008116 metal-binding site 627192008117 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 627192008118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192008119 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 627192008120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 627192008121 Transposase; Region: HTH_Tnp_1; cl17663 627192008122 putative transposase OrfB; Reviewed; Region: PHA02517 627192008123 HTH-like domain; Region: HTH_21; pfam13276 627192008124 Integrase core domain; Region: rve; pfam00665 627192008125 Integrase core domain; Region: rve_3; pfam13683 627192008126 potential frameshift: common BLAST hit: gi|148551055|ref|YP_001260485.1| transposase, mutator type 627192008127 Transposase, Mutator family; Region: Transposase_mut; pfam00872 627192008128 Transposase, Mutator family; Region: Transposase_mut; pfam00872 627192008129 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 627192008130 Transposase; Region: HTH_Tnp_1; pfam01527 627192008131 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 627192008132 Response regulator receiver domain; Region: Response_reg; pfam00072 627192008133 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 627192008134 active site 627192008135 phosphorylation site [posttranslational modification] 627192008136 intermolecular recognition site; other site 627192008137 dimerization interface [polypeptide binding]; other site 627192008138 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 627192008139 SapC; Region: SapC; pfam07277 627192008140 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 627192008141 FAD binding domain; Region: FAD_binding_4; pfam01565 627192008142 Predicted membrane protein [Function unknown]; Region: COG4763 627192008143 Acyltransferase family; Region: Acyl_transf_3; pfam01757 627192008144 helicase 45; Provisional; Region: PTZ00424 627192008145 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 627192008146 ATP binding site [chemical binding]; other site 627192008147 Mg++ binding site [ion binding]; other site 627192008148 motif III; other site 627192008149 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 627192008150 nucleotide binding region [chemical binding]; other site 627192008151 ATP-binding site [chemical binding]; other site 627192008152 integrase; Provisional; Region: PRK09692 627192008153 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 627192008154 active site 627192008155 Int/Topo IB signature motif; other site 627192008156 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 627192008157 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 627192008158 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 627192008159 non-specific DNA binding site [nucleotide binding]; other site 627192008160 salt bridge; other site 627192008161 sequence-specific DNA binding site [nucleotide binding]; other site 627192008162 Conjugal transfer protein TraD; Region: TraD; pfam06412 627192008163 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 627192008164 MobA/MobL family; Region: MobA_MobL; pfam03389 627192008165 AAA domain; Region: AAA_30; pfam13604 627192008166 Family description; Region: UvrD_C_2; pfam13538 627192008167 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 627192008168 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192008169 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 627192008170 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192008171 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 627192008172 dimer interface [polypeptide binding]; other site 627192008173 phosphorylation site [posttranslational modification] 627192008174 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 627192008175 ATP binding site [chemical binding]; other site 627192008176 Mg2+ binding site [ion binding]; other site 627192008177 G-X-G motif; other site 627192008178 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192008179 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 627192008180 active site 627192008181 phosphorylation site [posttranslational modification] 627192008182 intermolecular recognition site; other site 627192008183 dimerization interface [polypeptide binding]; other site 627192008184 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 627192008185 DNA binding site [nucleotide binding] 627192008186 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 627192008187 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 627192008188 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 627192008189 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 627192008190 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192008191 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 627192008192 Protein export membrane protein; Region: SecD_SecF; cl14618 627192008193 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 627192008194 NADH(P)-binding; Region: NAD_binding_10; pfam13460 627192008195 putative NAD(P) binding site [chemical binding]; other site 627192008196 active site 627192008197 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 627192008198 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 627192008199 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 627192008200 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192008201 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 627192008202 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 627192008203 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 627192008204 active site 627192008205 dimer interface [polypeptide binding]; other site 627192008206 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 627192008207 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 627192008208 active site 627192008209 FMN binding site [chemical binding]; other site 627192008210 substrate binding site [chemical binding]; other site 627192008211 3Fe-4S cluster binding site [ion binding]; other site 627192008212 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 627192008213 domain interface; other site 627192008214 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 627192008215 putative active site [active] 627192008216 putative metal binding site [ion binding]; other site 627192008217 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192008218 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 627192008219 C-terminal domain interface [polypeptide binding]; other site 627192008220 GSH binding site (G-site) [chemical binding]; other site 627192008221 dimer interface [polypeptide binding]; other site 627192008222 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 627192008223 dimer interface [polypeptide binding]; other site 627192008224 N-terminal domain interface [polypeptide binding]; other site 627192008225 substrate binding pocket (H-site) [chemical binding]; other site 627192008226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 627192008227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192008228 metal binding site [ion binding]; metal-binding site 627192008229 active site 627192008230 I-site; other site 627192008231 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 627192008232 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 627192008233 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 627192008234 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 627192008235 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 627192008236 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 627192008237 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 627192008238 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 627192008239 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 627192008240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192008241 Coenzyme A binding pocket [chemical binding]; other site 627192008242 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 627192008243 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 627192008244 metal binding site 2 [ion binding]; metal-binding site 627192008245 putative DNA binding helix; other site 627192008246 metal binding site 1 [ion binding]; metal-binding site 627192008247 dimer interface [polypeptide binding]; other site 627192008248 structural Zn2+ binding site [ion binding]; other site 627192008249 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 627192008250 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 627192008251 putative acyl-acceptor binding pocket; other site 627192008252 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 627192008253 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 627192008254 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 627192008255 FeS/SAM binding site; other site 627192008256 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 627192008257 nudix motif; other site 627192008258 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 627192008259 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192008260 catalytic residue [active] 627192008261 rod shape-determining protein MreB; Provisional; Region: PRK13927 627192008262 MreB and similar proteins; Region: MreB_like; cd10225 627192008263 nucleotide binding site [chemical binding]; other site 627192008264 Mg binding site [ion binding]; other site 627192008265 putative protofilament interaction site [polypeptide binding]; other site 627192008266 RodZ interaction site [polypeptide binding]; other site 627192008267 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 627192008268 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 627192008269 PhoH-like protein; Region: PhoH; pfam02562 627192008270 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 627192008271 FOG: CBS domain [General function prediction only]; Region: COG0517 627192008272 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 627192008273 Transporter associated domain; Region: CorC_HlyC; smart01091 627192008274 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 627192008275 active site 627192008276 catalytic site [active] 627192008277 substrate binding site [chemical binding]; other site 627192008278 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 627192008279 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 627192008280 Protein export membrane protein; Region: SecD_SecF; pfam02355 627192008281 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 627192008282 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 627192008283 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 627192008284 Preprotein translocase subunit; Region: YajC; cl00806 627192008285 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 627192008286 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 627192008287 DNA binding residues [nucleotide binding] 627192008288 dimerization interface [polypeptide binding]; other site 627192008289 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 627192008290 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 627192008291 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 627192008292 putative active site [active] 627192008293 catalytic triad [active] 627192008294 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 627192008295 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 627192008296 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 627192008297 active site 627192008298 catalytic site [active] 627192008299 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 627192008300 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 627192008301 non-specific DNA binding site [nucleotide binding]; other site 627192008302 salt bridge; other site 627192008303 sequence-specific DNA binding site [nucleotide binding]; other site 627192008304 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 627192008305 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 627192008306 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 627192008307 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 627192008308 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 627192008309 dimer interface [polypeptide binding]; other site 627192008310 active site 627192008311 glycine-pyridoxal phosphate binding site [chemical binding]; other site 627192008312 folate binding site [chemical binding]; other site 627192008313 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 627192008314 ATP cone domain; Region: ATP-cone; pfam03477 627192008315 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 627192008316 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 627192008317 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 627192008318 Acyltransferase family; Region: Acyl_transf_3; pfam01757 627192008319 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 627192008320 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 627192008321 putative DNA binding site [nucleotide binding]; other site 627192008322 dimerization interface [polypeptide binding]; other site 627192008323 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 627192008324 putative hydrophobic ligand binding site [chemical binding]; other site 627192008325 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 627192008326 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 627192008327 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 627192008328 RNA binding surface [nucleotide binding]; other site 627192008329 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 627192008330 PEP-CTERM motif; Region: VPEP; pfam07589 627192008331 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192008332 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192008333 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 627192008334 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 627192008335 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 627192008336 PA/protease or protease-like domain interface [polypeptide binding]; other site 627192008337 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 627192008338 metal binding site [ion binding]; metal-binding site 627192008339 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 627192008340 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 627192008341 putative active site [active] 627192008342 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 627192008343 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 627192008344 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 627192008345 Ligand binding site; other site 627192008346 oligomer interface; other site 627192008347 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 627192008348 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 627192008349 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 627192008350 nucleophilic elbow; other site 627192008351 catalytic triad; other site 627192008352 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 627192008353 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 627192008354 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 627192008355 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 627192008356 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192008357 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 627192008358 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 627192008359 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 627192008360 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 627192008361 putative active site; other site 627192008362 catalytic triad [active] 627192008363 putative dimer interface [polypeptide binding]; other site 627192008364 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 627192008365 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192008366 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 627192008367 active site 627192008368 phosphorylation site [posttranslational modification] 627192008369 intermolecular recognition site; other site 627192008370 dimerization interface [polypeptide binding]; other site 627192008371 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 627192008372 DNA binding site [nucleotide binding] 627192008373 sensor protein RstB; Provisional; Region: PRK10604 627192008374 HAMP domain; Region: HAMP; pfam00672 627192008375 dimerization interface [polypeptide binding]; other site 627192008376 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 627192008377 ATP binding site [chemical binding]; other site 627192008378 Mg2+ binding site [ion binding]; other site 627192008379 G-X-G motif; other site 627192008380 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 627192008381 active site clefts [active] 627192008382 zinc binding site [ion binding]; other site 627192008383 dimer interface [polypeptide binding]; other site 627192008384 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 627192008385 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 627192008386 Sulfate transporter family; Region: Sulfate_transp; pfam00916 627192008387 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 627192008388 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 627192008389 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 627192008390 ATP binding site [chemical binding]; other site 627192008391 Mg++ binding site [ion binding]; other site 627192008392 motif III; other site 627192008393 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 627192008394 nucleotide binding region [chemical binding]; other site 627192008395 ATP-binding site [chemical binding]; other site 627192008396 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 627192008397 RNA binding site [nucleotide binding]; other site 627192008398 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 627192008399 SnoaL-like domain; Region: SnoaL_2; pfam12680 627192008400 PhoD-like phosphatase; Region: PhoD; pfam09423 627192008401 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 627192008402 putative active site [active] 627192008403 putative metal binding site [ion binding]; other site 627192008404 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 627192008405 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 627192008406 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 627192008407 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 627192008408 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 627192008409 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 627192008410 FecR protein; Region: FecR; pfam04773 627192008411 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 627192008412 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192008413 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 627192008414 DNA binding residues [nucleotide binding] 627192008415 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192008416 MarR family; Region: MarR; pfam01047 627192008417 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 627192008418 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 627192008419 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 627192008420 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 627192008421 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 627192008422 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 627192008423 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 627192008424 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192008425 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 627192008426 Uncharacterized conserved protein [Function unknown]; Region: COG2128 627192008427 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 627192008428 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 627192008429 active site 627192008430 Int/Topo IB signature motif; other site 627192008431 DNA binding site [nucleotide binding] 627192008432 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 627192008433 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 627192008434 putative homodimer interface [polypeptide binding]; other site 627192008435 putative homotetramer interface [polypeptide binding]; other site 627192008436 putative metal binding site [ion binding]; other site 627192008437 putative homodimer-homodimer interface [polypeptide binding]; other site 627192008438 putative allosteric switch controlling residues; other site 627192008439 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 627192008440 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 627192008441 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 627192008442 Chromate transporter; Region: Chromate_transp; pfam02417 627192008443 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 627192008444 active site residue [active] 627192008445 Uncharacterized conserved protein [Function unknown]; Region: COG4275 627192008446 Outer membrane efflux protein; Region: OEP; pfam02321 627192008447 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 627192008448 lipoyl-biotinyl attachment site [posttranslational modification]; other site 627192008449 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192008450 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 627192008451 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 627192008452 Predicted membrane protein [Function unknown]; Region: COG1238 627192008453 H+ Antiporter protein; Region: 2A0121; TIGR00900 627192008454 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 627192008455 putative substrate translocation pore; other site 627192008456 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192008457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192008458 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 627192008459 dimerization interface [polypeptide binding]; other site 627192008460 substrate binding pocket [chemical binding]; other site 627192008461 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 627192008462 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 627192008463 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 627192008464 VirB7 interaction site; other site 627192008465 conjugal transfer protein TrbF; Provisional; Region: PRK13872 627192008466 conjugal transfer protein TrbL; Provisional; Region: PRK13875 627192008467 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 627192008468 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 627192008469 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 627192008470 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 627192008471 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 627192008472 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 627192008473 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 627192008474 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 627192008475 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 627192008476 ATP binding site [chemical binding]; other site 627192008477 Walker A motif; other site 627192008478 hexamer interface [polypeptide binding]; other site 627192008479 Walker B motif; other site 627192008480 Methyltransferase domain; Region: Methyltransf_26; pfam13659 627192008481 Predicted transcriptional regulator [Transcription]; Region: COG3905 627192008482 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 627192008483 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 627192008484 Walker A motif; other site 627192008485 ATP binding site [chemical binding]; other site 627192008486 Walker B motif; other site 627192008487 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 627192008488 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 627192008489 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 627192008490 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 627192008491 N-acetyl-D-glucosamine binding site [chemical binding]; other site 627192008492 catalytic residue [active] 627192008493 Protein of unknown function (DUF736); Region: DUF736; pfam05284 627192008494 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 627192008495 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 627192008496 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 627192008497 Replication initiator protein A; Region: RPA; pfam10134 627192008498 Helix-turn-helix domain; Region: HTH_17; pfam12728 627192008499 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 627192008500 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 627192008501 Domain of unknown function (DUF932); Region: DUF932; cl12129 627192008502 Protein of unknown function (DUF736); Region: DUF736; pfam05284 627192008503 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 627192008504 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 627192008505 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 627192008506 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 627192008507 catalytic residues [active] 627192008508 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 627192008509 PspC domain; Region: PspC; cl00864 627192008510 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 627192008511 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 627192008512 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 627192008513 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 627192008514 Walker A/P-loop; other site 627192008515 ATP binding site [chemical binding]; other site 627192008516 Q-loop/lid; other site 627192008517 ABC transporter signature motif; other site 627192008518 Walker B; other site 627192008519 D-loop; other site 627192008520 H-loop/switch region; other site 627192008521 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 627192008522 putative PBP binding regions; other site 627192008523 ABC-ATPase subunit interface; other site 627192008524 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 627192008525 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 627192008526 intersubunit interface [polypeptide binding]; other site 627192008527 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192008528 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 627192008529 N-terminal plug; other site 627192008530 ligand-binding site [chemical binding]; other site 627192008531 Predicted membrane protein [Function unknown]; Region: COG2311 627192008532 Protein of unknown function (DUF418); Region: DUF418; cl12135 627192008533 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 627192008534 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 627192008535 S-adenosylmethionine binding site [chemical binding]; other site 627192008536 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 627192008537 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192008538 Coenzyme A binding pocket [chemical binding]; other site 627192008539 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 627192008540 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 627192008541 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 627192008542 dimerization interface [polypeptide binding]; other site 627192008543 ATP binding site [chemical binding]; other site 627192008544 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 627192008545 dimerization interface [polypeptide binding]; other site 627192008546 ATP binding site [chemical binding]; other site 627192008547 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 627192008548 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 627192008549 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 627192008550 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 627192008551 substrate binding pocket [chemical binding]; other site 627192008552 chain length determination region; other site 627192008553 substrate-Mg2+ binding site; other site 627192008554 catalytic residues [active] 627192008555 aspartate-rich region 1; other site 627192008556 active site lid residues [active] 627192008557 aspartate-rich region 2; other site 627192008558 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 627192008559 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 627192008560 active site 627192008561 (T/H)XGH motif; other site 627192008562 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 627192008563 active site 627192008564 PEP-CTERM motif; Region: VPEP; pfam07589 627192008565 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 627192008566 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 627192008567 active site 627192008568 Zn binding site [ion binding]; other site 627192008569 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 627192008570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192008571 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 627192008572 dimerization interface [polypeptide binding]; other site 627192008573 Response regulator receiver domain; Region: Response_reg; pfam00072 627192008574 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 627192008575 active site 627192008576 phosphorylation site [posttranslational modification] 627192008577 intermolecular recognition site; other site 627192008578 dimerization interface [polypeptide binding]; other site 627192008579 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 627192008580 S-adenosylmethionine binding site [chemical binding]; other site 627192008581 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 627192008582 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 627192008583 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 627192008584 PA/protease or protease-like domain interface [polypeptide binding]; other site 627192008585 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 627192008586 Peptidase family M28; Region: Peptidase_M28; pfam04389 627192008587 metal binding site [ion binding]; metal-binding site 627192008588 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 627192008589 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 627192008590 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 627192008591 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 627192008592 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 627192008593 PhoD-like phosphatase; Region: PhoD; pfam09423 627192008594 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 627192008595 putative active site [active] 627192008596 putative metal binding site [ion binding]; other site 627192008597 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 627192008598 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192008599 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 627192008600 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 627192008601 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 627192008602 DNA-binding site [nucleotide binding]; DNA binding site 627192008603 RNA-binding motif; other site 627192008604 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 627192008605 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 627192008606 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 627192008607 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 627192008608 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 627192008609 Multicopper oxidase; Region: Cu-oxidase; pfam00394 627192008610 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 627192008611 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 627192008612 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 627192008613 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 627192008614 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 627192008615 DNA binding residues [nucleotide binding] 627192008616 Heavy-metal resistance; Region: Metal_resist; pfam13801 627192008617 dimer interface [polypeptide binding]; other site 627192008618 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192008619 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 627192008620 active site 627192008621 phosphorylation site [posttranslational modification] 627192008622 intermolecular recognition site; other site 627192008623 dimerization interface [polypeptide binding]; other site 627192008624 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 627192008625 DNA binding site [nucleotide binding] 627192008626 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 627192008627 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 627192008628 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 627192008629 Ligand Binding Site [chemical binding]; other site 627192008630 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 627192008631 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 627192008632 dimer interface [polypeptide binding]; other site 627192008633 phosphorylation site [posttranslational modification] 627192008634 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 627192008635 ATP binding site [chemical binding]; other site 627192008636 Mg2+ binding site [ion binding]; other site 627192008637 G-X-G motif; other site 627192008638 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 627192008639 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 627192008640 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 627192008641 Soluble P-type ATPase [General function prediction only]; Region: COG4087 627192008642 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 627192008643 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 627192008644 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 627192008645 active site 627192008646 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 627192008647 Coenzyme A binding pocket [chemical binding]; other site 627192008648 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 627192008649 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 627192008650 active site 627192008651 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 627192008652 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 627192008653 active site 627192008654 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 627192008655 succinic semialdehyde dehydrogenase; Region: PLN02278 627192008656 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 627192008657 tetramerization interface [polypeptide binding]; other site 627192008658 NAD(P) binding site [chemical binding]; other site 627192008659 catalytic residues [active] 627192008660 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 627192008661 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 627192008662 inhibitor-cofactor binding pocket; inhibition site 627192008663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192008664 catalytic residue [active] 627192008665 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192008666 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 627192008667 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 627192008668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192008669 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 627192008670 dimerization interface [polypeptide binding]; other site 627192008671 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 627192008672 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 627192008673 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192008674 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192008675 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 627192008676 putative C-terminal domain interface [polypeptide binding]; other site 627192008677 putative GSH binding site (G-site) [chemical binding]; other site 627192008678 putative dimer interface [polypeptide binding]; other site 627192008679 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 627192008680 dimer interface [polypeptide binding]; other site 627192008681 N-terminal domain interface [polypeptide binding]; other site 627192008682 putative substrate binding pocket (H-site) [chemical binding]; other site 627192008683 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 627192008684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 627192008685 DNA-binding site [nucleotide binding]; DNA binding site 627192008686 UTRA domain; Region: UTRA; pfam07702 627192008687 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 627192008688 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 627192008689 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 627192008690 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008691 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008692 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008693 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008694 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 627192008695 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 627192008696 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 627192008697 putative substrate translocation pore; other site 627192008698 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 627192008699 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 627192008700 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 627192008701 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 627192008702 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008703 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008704 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008705 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192008706 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 627192008707 active site 627192008708 Uncharacterized conserved protein [Function unknown]; Region: COG2128 627192008709 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 627192008710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192008711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192008712 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 627192008713 putative dimerization interface [polypeptide binding]; other site 627192008714 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 627192008715 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 627192008716 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 627192008717 putative substrate translocation pore; other site 627192008718 Major Facilitator Superfamily; Region: MFS_1; pfam07690 627192008719 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192008720 TAP-like protein; Region: Abhydrolase_4; pfam08386 627192008721 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192008722 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 627192008723 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 627192008724 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192008725 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 627192008726 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 627192008727 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 627192008728 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 627192008729 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 627192008730 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 627192008731 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 627192008732 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 627192008733 Protein of unknown function (DUF1552); Region: HXXSHH; pfam07586 627192008734 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 627192008735 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 627192008736 active site 627192008737 Protein of unknown function (DUF1587); Region: PSD3; pfam07626 627192008738 Protein of unknown function (DUF1595); Region: PSD5; pfam07637 627192008739 Protein of unknown function (DUF1592); Region: PSD4; pfam07631 627192008740 Protein of unknown function (DUF1588); Region: PSCyt3; pfam07627 627192008741 Protein of unknown function (DUF1585); Region: PSD2; pfam07624 627192008742 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 627192008743 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 627192008744 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192008745 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 627192008746 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 627192008747 dimer interface [polypeptide binding]; other site 627192008748 active site 627192008749 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 627192008750 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 627192008751 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192008752 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 627192008753 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 627192008754 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 627192008755 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 627192008756 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 627192008757 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 627192008758 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 627192008759 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192008760 active site 627192008761 HIGH motif; other site 627192008762 nucleotide binding site [chemical binding]; other site 627192008763 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 627192008764 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 627192008765 active site 627192008766 KMSKS motif; other site 627192008767 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 627192008768 tRNA binding surface [nucleotide binding]; other site 627192008769 anticodon binding site; other site 627192008770 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 627192008771 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 627192008772 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 627192008773 short chain dehydrogenase; Provisional; Region: PRK12829 627192008774 classical (c) SDRs; Region: SDR_c; cd05233 627192008775 NAD(P) binding site [chemical binding]; other site 627192008776 active site 627192008777 Peptidase family M48; Region: Peptidase_M48; cl12018 627192008778 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 627192008779 Domain of unknown function DUF87; Region: DUF87; pfam01935 627192008780 AAA-like domain; Region: AAA_10; pfam12846 627192008781 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 627192008782 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 627192008783 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 627192008784 active site 627192008785 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 627192008786 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 627192008787 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 627192008788 active site 627192008789 (T/H)XGH motif; other site 627192008790 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 627192008791 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 627192008792 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 627192008793 Peptidase family M23; Region: Peptidase_M23; pfam01551 627192008794 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 627192008795 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 627192008796 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 627192008797 protein binding site [polypeptide binding]; other site 627192008798 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 627192008799 Catalytic dyad [active] 627192008800 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 627192008801 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 627192008802 diiron binding motif [ion binding]; other site 627192008803 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 627192008804 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 627192008805 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 627192008806 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 627192008807 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 627192008808 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 627192008809 active site 627192008810 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 627192008811 lycopene cyclase; Region: lycopene_cycl; TIGR01789 627192008812 phytoene desaturase; Region: crtI_fam; TIGR02734 627192008813 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 627192008814 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 627192008815 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 627192008816 active site lid residues [active] 627192008817 substrate binding pocket [chemical binding]; other site 627192008818 catalytic residues [active] 627192008819 substrate-Mg2+ binding site; other site 627192008820 aspartate-rich region 1; other site 627192008821 aspartate-rich region 2; other site 627192008822 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 627192008823 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 627192008824 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 627192008825 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 627192008826 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 627192008827 active site 627192008828 peptidase PmbA; Provisional; Region: PRK11040 627192008829 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 627192008830 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 627192008831 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 627192008832 putative NADH binding site [chemical binding]; other site 627192008833 putative active site [active] 627192008834 nudix motif; other site 627192008835 putative metal binding site [ion binding]; other site 627192008836 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 627192008837 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 627192008838 minor groove reading motif; other site 627192008839 helix-hairpin-helix signature motif; other site 627192008840 substrate binding pocket [chemical binding]; other site 627192008841 active site 627192008842 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 627192008843 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 627192008844 DNA binding and oxoG recognition site [nucleotide binding] 627192008845 Protein of unknown function (DUF721); Region: DUF721; pfam05258 627192008846 Thioredoxin; Region: Thioredoxin_4; cl17273 627192008847 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 627192008848 Thioredoxin; Region: Thioredoxin_4; pfam13462 627192008849 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 627192008850 Walker A/P-loop; other site 627192008851 ATP binding site [chemical binding]; other site 627192008852 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 627192008853 ABC transporter signature motif; other site 627192008854 Walker B; other site 627192008855 D-loop; other site 627192008856 H-loop/switch region; other site 627192008857 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 627192008858 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 627192008859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192008860 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 627192008861 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 627192008862 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 627192008863 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 627192008864 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 627192008865 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 627192008866 Low affinity iron permease; Region: Iron_permease; pfam04120 627192008867 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 627192008868 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 627192008869 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 627192008870 CoA-ligase; Region: Ligase_CoA; pfam00549 627192008871 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 627192008872 Ligand binding site [chemical binding]; other site 627192008873 Electron transfer flavoprotein domain; Region: ETF; pfam01012 627192008874 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 627192008875 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 627192008876 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 627192008877 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 627192008878 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 627192008879 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 627192008880 Found in ATP-dependent protease La (LON); Region: LON; smart00464 627192008881 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 627192008882 Walker A motif; other site 627192008883 ATP binding site [chemical binding]; other site 627192008884 Walker B motif; other site 627192008885 arginine finger; other site 627192008886 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 627192008887 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 627192008888 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 627192008889 putative dimer interface [polypeptide binding]; other site 627192008890 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 627192008891 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 627192008892 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 627192008893 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 627192008894 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 627192008895 phosphogluconate dehydratase; Validated; Region: PRK09054 627192008896 6-phosphogluconate dehydratase; Region: edd; TIGR01196 627192008897 glucokinase, proteobacterial type; Region: glk; TIGR00749 627192008898 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 627192008899 nucleotide binding site [chemical binding]; other site 627192008900 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 627192008901 active site 627192008902 intersubunit interface [polypeptide binding]; other site 627192008903 catalytic residue [active] 627192008904 Transposase; Region: HTH_Tnp_IS630; pfam01710 627192008905 DDE superfamily endonuclease; Region: DDE_3; pfam13358 627192008906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 627192008907 Helix-turn-helix domain; Region: HTH_18; pfam12833 627192008908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 627192008909 Bacterial SH3 domain; Region: SH3_4; pfam06347 627192008910 Bacterial SH3 domain; Region: SH3_4; pfam06347 627192008911 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 627192008912 dimerization interface [polypeptide binding]; other site 627192008913 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 627192008914 ligand binding site [chemical binding]; other site 627192008915 NADP binding site [chemical binding]; other site 627192008916 catalytic site [active] 627192008917 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 627192008918 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 627192008919 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 627192008920 active site 627192008921 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192008922 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 627192008923 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 627192008924 FMN binding site [chemical binding]; other site 627192008925 substrate binding site [chemical binding]; other site 627192008926 putative catalytic residue [active] 627192008927 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192008928 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 627192008929 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 627192008930 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 627192008931 hypothetical protein; Validated; Region: PRK00029 627192008932 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 627192008933 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 627192008934 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 627192008935 NAD(P) binding site [chemical binding]; other site 627192008936 catalytic residues [active] 627192008937 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_6; cd07242 627192008938 putative dimer interface [polypeptide binding]; other site 627192008939 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192008940 ligand binding site [chemical binding]; other site 627192008941 Zn binding site [ion binding]; other site 627192008942 PEP-CTERM motif; Region: VPEP; pfam07589 627192008943 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 627192008944 active site 627192008945 SAM binding site [chemical binding]; other site 627192008946 homodimer interface [polypeptide binding]; other site 627192008947 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 627192008948 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 627192008949 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 627192008950 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 627192008951 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 627192008952 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 627192008953 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 627192008954 Active Sites [active] 627192008955 Methyltransferase domain; Region: Methyltransf_31; pfam13847 627192008956 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 627192008957 S-adenosylmethionine binding site [chemical binding]; other site 627192008958 HI0933-like protein; Region: HI0933_like; pfam03486 627192008959 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192008960 Uncharacterized conserved protein [Function unknown]; Region: COG3791 627192008961 replicative DNA helicase; Provisional; Region: PRK09165 627192008962 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 627192008963 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 627192008964 Walker A motif; other site 627192008965 ATP binding site [chemical binding]; other site 627192008966 Walker B motif; other site 627192008967 DNA binding loops [nucleotide binding] 627192008968 hypothetical protein; Provisional; Region: PRK02853 627192008969 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 627192008970 active site 627192008971 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 627192008972 active site 627192008973 catalytic motif [active] 627192008974 Zn binding site [ion binding]; other site 627192008975 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 627192008976 trimer interface [polypeptide binding]; other site 627192008977 active site 627192008978 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 627192008979 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 627192008980 active site 627192008981 metal binding site [ion binding]; metal-binding site 627192008982 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 627192008983 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 627192008984 active site 627192008985 phosphorylation site [posttranslational modification] 627192008986 intermolecular recognition site; other site 627192008987 dimerization interface [polypeptide binding]; other site 627192008988 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 627192008989 DNA binding site [nucleotide binding] 627192008990 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 627192008991 Acyltransferase family; Region: Acyl_transf_3; pfam01757 627192008992 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 627192008993 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 627192008994 active site 627192008995 hypothetical protein; Provisional; Region: PRK09256 627192008996 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 627192008997 GAF domain; Region: GAF_2; pfam13185 627192008998 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 627192008999 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 627192009000 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 627192009001 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 627192009002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192009003 Walker A/P-loop; other site 627192009004 ATP binding site [chemical binding]; other site 627192009005 ABC transporter; Region: ABC_tran; pfam00005 627192009006 Q-loop/lid; other site 627192009007 ABC transporter signature motif; other site 627192009008 Walker B; other site 627192009009 D-loop; other site 627192009010 H-loop/switch region; other site 627192009011 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 627192009012 dimer interface [polypeptide binding]; other site 627192009013 conserved gate region; other site 627192009014 putative PBP binding loops; other site 627192009015 ABC-ATPase subunit interface; other site 627192009016 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 627192009017 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 627192009018 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 627192009019 threonine dehydratase; Provisional; Region: PRK07334 627192009020 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 627192009021 tetramer interface [polypeptide binding]; other site 627192009022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192009023 catalytic residue [active] 627192009024 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 627192009025 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 627192009026 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 627192009027 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 627192009028 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 627192009029 Amidohydrolase family; Region: Amidohydro_3; pfam07969 627192009030 active site 627192009031 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 627192009032 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 627192009033 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 627192009034 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192009035 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 627192009036 putative N-terminal domain interface [polypeptide binding]; other site 627192009037 putative dimer interface [polypeptide binding]; other site 627192009038 putative substrate binding pocket (H-site) [chemical binding]; other site 627192009039 tetracycline repressor protein TetR; Provisional; Region: PRK13756 627192009040 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192009041 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 627192009042 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 627192009043 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192009044 iron-sulfur cluster [ion binding]; other site 627192009045 [2Fe-2S] cluster binding site [ion binding]; other site 627192009046 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 627192009047 alpha subunit interface [polypeptide binding]; other site 627192009048 active site 627192009049 substrate binding site [chemical binding]; other site 627192009050 Fe binding site [ion binding]; other site 627192009051 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 627192009052 dimer interface [polypeptide binding]; other site 627192009053 ADP-ribose binding site [chemical binding]; other site 627192009054 active site 627192009055 nudix motif; other site 627192009056 metal binding site [ion binding]; metal-binding site 627192009057 Repair protein; Region: Repair_PSII; cl01535 627192009058 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 627192009059 Repair protein; Region: Repair_PSII; pfam04536 627192009060 LemA family; Region: LemA; cl00742 627192009061 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 627192009062 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 627192009063 tetratricopeptide repeat protein; Provisional; Region: PRK11788 627192009064 Transposase; Region: HTH_Tnp_1; cl17663 627192009065 Winged helix-turn helix; Region: HTH_29; pfam13551 627192009066 Integrase core domain; Region: rve; pfam00665 627192009067 Integrase core domain; Region: rve_3; pfam13683 627192009068 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 627192009069 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 627192009070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192009071 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 627192009072 NAD(P) binding site [chemical binding]; other site 627192009073 active site 627192009074 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 627192009075 nucleophile elbow; other site 627192009076 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 627192009077 Patatin phospholipase; Region: DUF3734; pfam12536 627192009078 Predicted metalloprotease [General function prediction only]; Region: COG2321 627192009079 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 627192009080 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 627192009081 seryl-tRNA synthetase; Provisional; Region: PRK05431 627192009082 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 627192009083 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 627192009084 dimer interface [polypeptide binding]; other site 627192009085 active site 627192009086 motif 1; other site 627192009087 motif 2; other site 627192009088 motif 3; other site 627192009089 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 627192009090 Ion channel; Region: Ion_trans_2; pfam07885 627192009091 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 627192009092 TrkA-N domain; Region: TrkA_N; pfam02254 627192009093 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 627192009094 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 627192009095 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 627192009096 FeS/SAM binding site; other site 627192009097 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 627192009098 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 627192009099 interface (dimer of trimers) [polypeptide binding]; other site 627192009100 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 627192009101 Substrate-binding/catalytic site; other site 627192009102 Zn-binding sites [ion binding]; other site 627192009103 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 627192009104 NlpC/P60 family; Region: NLPC_P60; cl17555 627192009105 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 627192009106 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 627192009107 methionine sulfoxide reductase A; Provisional; Region: PRK14054 627192009108 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 627192009109 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 627192009110 active site 627192009111 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 627192009112 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 627192009113 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 627192009114 Protein of unknown function (DUF815); Region: DUF815; pfam05673 627192009115 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 627192009116 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 627192009117 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 627192009118 acyl-activating enzyme (AAE) consensus motif; other site 627192009119 putative AMP binding site [chemical binding]; other site 627192009120 putative active site [active] 627192009121 putative CoA binding site [chemical binding]; other site 627192009122 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 627192009123 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192009124 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 627192009125 S-adenosylmethionine binding site [chemical binding]; other site 627192009126 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 627192009127 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 627192009128 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 627192009129 putative active site [active] 627192009130 putative metal binding site [ion binding]; other site 627192009131 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192009132 GST_N family, unknown subfamily 4; 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_4; cd03056 627192009133 putative C-terminal domain interface [polypeptide binding]; other site 627192009134 putative GSH binding site (G-site) [chemical binding]; other site 627192009135 putative dimer interface [polypeptide binding]; other site 627192009136 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 627192009137 N-terminal domain interface [polypeptide binding]; other site 627192009138 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 627192009139 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 627192009140 NAD(P) binding site [chemical binding]; other site 627192009141 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 627192009142 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 627192009143 Clp amino terminal domain; Region: Clp_N; pfam02861 627192009144 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 627192009145 Walker A motif; other site 627192009146 ATP binding site [chemical binding]; other site 627192009147 Walker B motif; other site 627192009148 arginine finger; other site 627192009149 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 627192009150 Walker A motif; other site 627192009151 ATP binding site [chemical binding]; other site 627192009152 Walker B motif; other site 627192009153 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 627192009154 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 627192009155 PGAP1-like protein; Region: PGAP1; pfam07819 627192009156 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192009157 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 627192009158 putative C-terminal domain interface [polypeptide binding]; other site 627192009159 putative GSH binding site (G-site) [chemical binding]; other site 627192009160 putative dimer interface [polypeptide binding]; other site 627192009161 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 627192009162 dimer interface [polypeptide binding]; other site 627192009163 N-terminal domain interface [polypeptide binding]; other site 627192009164 putative substrate binding pocket (H-site) [chemical binding]; other site 627192009165 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 627192009166 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 627192009167 outer membrane protein A; Reviewed; Region: PRK10808 627192009168 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 627192009169 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 627192009170 ligand binding site [chemical binding]; other site 627192009171 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 627192009172 Putative phage tail protein; Region: Phage-tail_3; pfam13550 627192009173 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 627192009174 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 627192009175 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 627192009176 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 627192009177 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 627192009178 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 627192009179 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 627192009180 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 627192009181 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 627192009182 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 627192009183 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 627192009184 Phage capsid family; Region: Phage_capsid; pfam05065 627192009185 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 627192009186 Phage-related protein [Function unknown]; Region: COG4695 627192009187 Phage portal protein; Region: Phage_portal; pfam04860 627192009188 Autoinducer binding domain; Region: Autoind_bind; pfam03472 627192009189 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 627192009190 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 627192009191 DNA binding residues [nucleotide binding] 627192009192 dimerization interface [polypeptide binding]; other site 627192009193 Uncharacterized conserved protein [Function unknown]; Region: COG5323 627192009194 Terminase-like family; Region: Terminase_6; pfam03237 627192009195 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 627192009196 S-adenosylmethionine synthetase; Validated; Region: PRK05250 627192009197 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 627192009198 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 627192009199 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 627192009200 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 627192009201 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 627192009202 putative active site [active] 627192009203 catalytic triad [active] 627192009204 putative dimer interface [polypeptide binding]; other site 627192009205 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 627192009206 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192009207 putative metal binding site [ion binding]; other site 627192009208 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 627192009209 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 627192009210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 627192009211 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 627192009212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192009213 NAD(P) binding site [chemical binding]; other site 627192009214 active site 627192009215 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 627192009216 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 627192009217 Phospholipid methyltransferase; Region: PEMT; cl17370 627192009218 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 627192009219 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 627192009220 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 627192009221 active site 627192009222 catalytic tetrad [active] 627192009223 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 627192009224 dimerization interface [polypeptide binding]; other site 627192009225 putative DNA binding site [nucleotide binding]; other site 627192009226 putative Zn2+ binding site [ion binding]; other site 627192009227 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 627192009228 putative hydrophobic ligand binding site [chemical binding]; other site 627192009229 argininosuccinate synthase; Provisional; Region: PRK13820 627192009230 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 627192009231 ANP binding site [chemical binding]; other site 627192009232 Substrate Binding Site II [chemical binding]; other site 627192009233 Substrate Binding Site I [chemical binding]; other site 627192009234 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 627192009235 Modifier of rudimentary (Mod(r)) protein; Region: Mod_r; pfam07200 627192009236 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 627192009237 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 627192009238 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 627192009239 S-adenosylmethionine binding site [chemical binding]; other site 627192009240 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 627192009241 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 627192009242 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192009243 catalytic residue [active] 627192009244 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 627192009245 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 627192009246 Moco binding site; other site 627192009247 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 627192009248 metal coordination site [ion binding]; other site 627192009249 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 627192009250 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 627192009251 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 627192009252 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192009253 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192009254 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 627192009255 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 627192009256 E-class dimer interface [polypeptide binding]; other site 627192009257 P-class dimer interface [polypeptide binding]; other site 627192009258 active site 627192009259 Cu2+ binding site [ion binding]; other site 627192009260 Zn2+ binding site [ion binding]; other site 627192009261 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 627192009262 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 627192009263 FeS/SAM binding site; other site 627192009264 DNA polymerase III subunit beta; Validated; Region: PRK05643 627192009265 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 627192009266 putative DNA binding surface [nucleotide binding]; other site 627192009267 dimer interface [polypeptide binding]; other site 627192009268 beta-clamp/clamp loader binding surface; other site 627192009269 beta-clamp/translesion DNA polymerase binding surface; other site 627192009270 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 627192009271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192009272 metal binding site [ion binding]; metal-binding site 627192009273 active site 627192009274 I-site; other site 627192009275 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 627192009276 PilZ domain; Region: PilZ; pfam07238 627192009277 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 627192009278 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 627192009279 AAA domain; Region: AAA_28; pfam13521 627192009280 Walker A motif; other site 627192009281 ATP binding site [chemical binding]; other site 627192009282 Walker B motif; other site 627192009283 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 627192009284 TIR domain; Region: TIR_2; pfam13676 627192009285 GTP-binding protein LepA; Provisional; Region: PRK05433 627192009286 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 627192009287 G1 box; other site 627192009288 putative GEF interaction site [polypeptide binding]; other site 627192009289 GTP/Mg2+ binding site [chemical binding]; other site 627192009290 Switch I region; other site 627192009291 G2 box; other site 627192009292 G3 box; other site 627192009293 Switch II region; other site 627192009294 G4 box; other site 627192009295 G5 box; other site 627192009296 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 627192009297 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 627192009298 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 627192009299 threonine synthase; Validated; Region: PRK08197 627192009300 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 627192009301 homodimer interface [polypeptide binding]; other site 627192009302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192009303 catalytic residue [active] 627192009304 hypothetical protein; Provisional; Region: PRK06194 627192009305 classical (c) SDRs; Region: SDR_c; cd05233 627192009306 NAD(P) binding site [chemical binding]; other site 627192009307 active site 627192009308 Staphylococcal nuclease homologues; Region: SNc; smart00318 627192009309 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 627192009310 Catalytic site; other site 627192009311 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 627192009312 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 627192009313 catalytic triad [active] 627192009314 recombination protein F; Reviewed; Region: recF; PRK00064 627192009315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192009316 Walker A/P-loop; other site 627192009317 ATP binding site [chemical binding]; other site 627192009318 Q-loop/lid; other site 627192009319 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192009320 ABC transporter signature motif; other site 627192009321 Walker B; other site 627192009322 D-loop; other site 627192009323 H-loop/switch region; other site 627192009324 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 627192009325 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 627192009326 hypothetical protein; Provisional; Region: PRK06446 627192009327 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 627192009328 metal binding site [ion binding]; metal-binding site 627192009329 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 627192009330 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 627192009331 G1 box; other site 627192009332 putative GEF interaction site [polypeptide binding]; other site 627192009333 GTP/Mg2+ binding site [chemical binding]; other site 627192009334 Switch I region; other site 627192009335 G2 box; other site 627192009336 G3 box; other site 627192009337 Switch II region; other site 627192009338 G4 box; other site 627192009339 G5 box; other site 627192009340 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 627192009341 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 627192009342 putative cation:proton antiport protein; Provisional; Region: PRK10669 627192009343 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 627192009344 TrkA-N domain; Region: TrkA_N; pfam02254 627192009345 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 627192009346 S-adenosylmethionine binding site [chemical binding]; other site 627192009347 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 627192009348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 627192009349 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192009350 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 627192009351 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 627192009352 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 627192009353 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 627192009354 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 627192009355 dimerization interface [polypeptide binding]; other site 627192009356 putative DNA binding site [nucleotide binding]; other site 627192009357 putative Zn2+ binding site [ion binding]; other site 627192009358 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 627192009359 Predicted membrane protein [Function unknown]; Region: COG2246 627192009360 GtrA-like protein; Region: GtrA; pfam04138 627192009361 oligosaccharyl transferase, archaeosortase A system-associated; Region: archaeo_STT3; TIGR04154 627192009362 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 627192009363 nucleoside/Zn binding site; other site 627192009364 dimer interface [polypeptide binding]; other site 627192009365 catalytic motif [active] 627192009366 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 627192009367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 627192009368 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 627192009369 short chain dehydrogenase; Provisional; Region: PRK07109 627192009370 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 627192009371 putative NAD(P) binding site [chemical binding]; other site 627192009372 active site 627192009373 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 627192009374 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 627192009375 active site 627192009376 phosphorylation site [posttranslational modification] 627192009377 intermolecular recognition site; other site 627192009378 dimerization interface [polypeptide binding]; other site 627192009379 LytTr DNA-binding domain; Region: LytTR; smart00850 627192009380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192009381 Histidine kinase; Region: His_kinase; pfam06580 627192009382 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 627192009383 ATP binding site [chemical binding]; other site 627192009384 Mg2+ binding site [ion binding]; other site 627192009385 G-X-G motif; other site 627192009386 Predicted transcriptional regulators [Transcription]; Region: COG1733 627192009387 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 627192009388 dimerization interface [polypeptide binding]; other site 627192009389 putative DNA binding site [nucleotide binding]; other site 627192009390 putative Zn2+ binding site [ion binding]; other site 627192009391 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 627192009392 HD domain; Region: HD_4; pfam13328 627192009393 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 627192009394 synthetase active site [active] 627192009395 NTP binding site [chemical binding]; other site 627192009396 metal binding site [ion binding]; metal-binding site 627192009397 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 627192009398 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 627192009399 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 627192009400 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 627192009401 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 627192009402 Ferredoxin [Energy production and conversion]; Region: COG1146 627192009403 4Fe-4S binding domain; Region: Fer4; cl02805 627192009404 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 627192009405 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 627192009406 RNA binding surface [nucleotide binding]; other site 627192009407 DEAD/DEAH box helicase; Region: DEAD; pfam00270 627192009408 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 627192009409 nucleotide binding region [chemical binding]; other site 627192009410 ATP-binding site [chemical binding]; other site 627192009411 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 627192009412 Peptidase family M23; Region: Peptidase_M23; pfam01551 627192009413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192009414 AAA domain; Region: AAA_21; pfam13304 627192009415 Walker A/P-loop; other site 627192009416 ATP binding site [chemical binding]; other site 627192009417 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192009418 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 627192009419 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192009420 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 627192009421 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 627192009422 Bacterial sugar transferase; Region: Bac_transf; pfam02397 627192009423 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 627192009424 TPR motif; other site 627192009425 binding surface 627192009426 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 627192009427 binding surface 627192009428 TPR motif; other site 627192009429 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 627192009430 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 627192009431 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 627192009432 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 627192009433 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 627192009434 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 627192009435 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 627192009436 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 627192009437 NAD binding site [chemical binding]; other site 627192009438 substrate binding site [chemical binding]; other site 627192009439 homodimer interface [polypeptide binding]; other site 627192009440 active site 627192009441 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 627192009442 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 627192009443 NADP binding site [chemical binding]; other site 627192009444 active site 627192009445 putative substrate binding site [chemical binding]; other site 627192009446 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 627192009447 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 627192009448 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 627192009449 substrate binding site; other site 627192009450 tetramer interface; other site 627192009451 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 627192009452 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 627192009453 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 627192009454 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 627192009455 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192009456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192009457 NAD(P) binding site [chemical binding]; other site 627192009458 active site 627192009459 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 627192009460 active site 627192009461 tetramer interface; other site 627192009462 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 627192009463 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 627192009464 Probable Catalytic site; other site 627192009465 metal-binding site 627192009466 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 627192009467 putative trimer interface [polypeptide binding]; other site 627192009468 putative CoA binding site [chemical binding]; other site 627192009469 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 627192009470 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 627192009471 cytochrome b; Provisional; Region: CYTB; MTH00156 627192009472 interchain domain interface [polypeptide binding]; other site 627192009473 intrachain domain interface; other site 627192009474 heme bH binding site [chemical binding]; other site 627192009475 Qi binding site; other site 627192009476 heme bL binding site [chemical binding]; other site 627192009477 Qo binding site; other site 627192009478 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 627192009479 interchain domain interface [polypeptide binding]; other site 627192009480 intrachain domain interface; other site 627192009481 Qi binding site; other site 627192009482 Qo binding site; other site 627192009483 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 627192009484 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 627192009485 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 627192009486 [2Fe-2S] cluster binding site [ion binding]; other site 627192009487 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 627192009488 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 627192009489 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 627192009490 lipoate-protein ligase B; Provisional; Region: PRK14341 627192009491 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 627192009492 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 627192009493 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 627192009494 Ligand Binding Site [chemical binding]; other site 627192009495 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 627192009496 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 627192009497 dimerization interface [polypeptide binding]; other site 627192009498 domain crossover interface; other site 627192009499 redox-dependent activation switch; other site 627192009500 ornithine carbamoyltransferase; Provisional; Region: PRK00779 627192009501 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 627192009502 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 627192009503 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 627192009504 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 627192009505 inhibitor-cofactor binding pocket; inhibition site 627192009506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192009507 catalytic residue [active] 627192009508 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 627192009509 active site 627192009510 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 627192009511 L-aspartate oxidase; Provisional; Region: PRK09077 627192009512 L-aspartate oxidase; Provisional; Region: PRK06175 627192009513 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 627192009514 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 627192009515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192009516 Walker A/P-loop; other site 627192009517 ATP binding site [chemical binding]; other site 627192009518 Q-loop/lid; other site 627192009519 ABC transporter signature motif; other site 627192009520 Walker B; other site 627192009521 D-loop; other site 627192009522 H-loop/switch region; other site 627192009523 ATP12 chaperone protein; Region: ATP12; pfam07542 627192009524 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 627192009525 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 627192009526 motif II; other site 627192009527 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 627192009528 Domain of unknown function (DUF2019); Region: DUF2019; pfam09450 627192009529 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 627192009530 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 627192009531 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 627192009532 putative dimer interface [polypeptide binding]; other site 627192009533 N-terminal domain interface [polypeptide binding]; other site 627192009534 putative substrate binding pocket (H-site) [chemical binding]; other site 627192009535 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 627192009536 ApbE family; Region: ApbE; pfam02424 627192009537 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 627192009538 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 627192009539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 627192009540 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 627192009541 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 627192009542 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 627192009543 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 627192009544 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192009545 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 627192009546 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 627192009547 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 627192009548 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 627192009549 active site 627192009550 substrate binding site [chemical binding]; other site 627192009551 FMN binding site [chemical binding]; other site 627192009552 putative catalytic residues [active] 627192009553 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 627192009554 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 627192009555 NAD(P) binding site [chemical binding]; other site 627192009556 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192009557 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 627192009558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 627192009559 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192009560 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192009561 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 627192009562 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 627192009563 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 627192009564 active site 627192009565 catalytic triad [active] 627192009566 oxyanion hole [active] 627192009567 Tannase and feruloyl esterase; Region: Tannase; pfam07519 627192009568 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 627192009569 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 627192009570 FtsX-like permease family; Region: FtsX; pfam02687 627192009571 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 627192009572 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 627192009573 Walker A/P-loop; other site 627192009574 ATP binding site [chemical binding]; other site 627192009575 Q-loop/lid; other site 627192009576 ABC transporter signature motif; other site 627192009577 Walker B; other site 627192009578 D-loop; other site 627192009579 H-loop/switch region; other site 627192009580 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 627192009581 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 627192009582 HlyD family secretion protein; Region: HlyD_3; pfam13437 627192009583 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 627192009584 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 627192009585 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 627192009586 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 627192009587 trimer interface [polypeptide binding]; other site 627192009588 active site 627192009589 substrate binding site [chemical binding]; other site 627192009590 CoA binding site [chemical binding]; other site 627192009591 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 627192009592 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 627192009593 BON domain; Region: BON; pfam04972 627192009594 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 627192009595 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 627192009596 tetramer interface [polypeptide binding]; other site 627192009597 catalytic Zn binding site [ion binding]; other site 627192009598 NADP binding site [chemical binding]; other site 627192009599 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 627192009600 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 627192009601 membrane-bound complex binding site; other site 627192009602 hinge residues; other site 627192009603 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 627192009604 O-methyltransferase; Region: Methyltransf_2; pfam00891 627192009605 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 627192009606 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 627192009607 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 627192009608 Cysteine-rich domain; Region: CCG; pfam02754 627192009609 Cysteine-rich domain; Region: CCG; pfam02754 627192009610 FAD binding domain; Region: FAD_binding_4; pfam01565 627192009611 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 627192009612 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 627192009613 FAD binding domain; Region: FAD_binding_4; pfam01565 627192009614 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 627192009615 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 627192009616 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 627192009617 Predicted acyl esterases [General function prediction only]; Region: COG2936 627192009618 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 627192009619 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192009620 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 627192009621 active site 627192009622 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 627192009623 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192009624 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 627192009625 iron-sulfur cluster [ion binding]; other site 627192009626 [2Fe-2S] cluster binding site [ion binding]; other site 627192009627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192009628 NAD(P) binding site [chemical binding]; other site 627192009629 active site 627192009630 benzoate transport; Region: 2A0115; TIGR00895 627192009631 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 627192009632 putative substrate translocation pore; other site 627192009633 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 627192009634 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 627192009635 catalytic site [active] 627192009636 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192009637 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 627192009638 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 627192009639 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192009640 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192009641 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 627192009642 tetramerization interface [polypeptide binding]; other site 627192009643 NAD(P) binding site [chemical binding]; other site 627192009644 catalytic residues [active] 627192009645 benzoate transport; Region: 2A0115; TIGR00895 627192009646 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 627192009647 putative substrate translocation pore; other site 627192009648 SnoaL-like domain; Region: SnoaL_4; cl17707 627192009649 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 627192009650 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 627192009651 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 627192009652 hydrophobic ligand binding site; other site 627192009653 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 627192009654 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 627192009655 PYR/PP interface [polypeptide binding]; other site 627192009656 dimer interface [polypeptide binding]; other site 627192009657 TPP binding site [chemical binding]; other site 627192009658 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 627192009659 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 627192009660 TPP-binding site; other site 627192009661 dimer interface [polypeptide binding]; other site 627192009662 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 627192009663 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 627192009664 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192009665 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192009666 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 627192009667 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 627192009668 CoA binding domain; Region: CoA_binding_2; pfam13380 627192009669 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 627192009670 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 627192009671 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 627192009672 enoyl-CoA hydratase; Provisional; Region: PRK07799 627192009673 substrate binding site [chemical binding]; other site 627192009674 oxyanion hole (OAH) forming residues; other site 627192009675 trimer interface [polypeptide binding]; other site 627192009676 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 627192009677 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 627192009678 active site 627192009679 DUF35 OB-fold domain; Region: DUF35; pfam01796 627192009680 Transcriptional regulator [Transcription]; Region: IclR; COG1414 627192009681 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 627192009682 Bacterial transcriptional regulator; Region: IclR; pfam01614 627192009683 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 627192009684 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 627192009685 membrane-bound complex binding site; other site 627192009686 hinge residues; other site 627192009687 classical (c) SDRs; Region: SDR_c; cd05233 627192009688 NAD(P) binding site [chemical binding]; other site 627192009689 active site 627192009690 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 627192009691 Domain of unknown function (DUF329); Region: DUF329; pfam03884 627192009692 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 627192009693 Maf-like protein; Region: Maf; pfam02545 627192009694 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 627192009695 active site 627192009696 dimer interface [polypeptide binding]; other site 627192009697 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 627192009698 rRNA binding site [nucleotide binding]; other site 627192009699 predicted 30S ribosome binding site; other site 627192009700 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 627192009701 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 627192009702 inhibitor-cofactor binding pocket; inhibition site 627192009703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192009704 catalytic residue [active] 627192009705 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 627192009706 AAA domain; Region: AAA_26; pfam13500 627192009707 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 627192009708 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 627192009709 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192009710 catalytic residue [active] 627192009711 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 627192009712 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 627192009713 thiamine-monophosphate kinase; Region: thiL; TIGR01379 627192009714 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 627192009715 ATP binding site [chemical binding]; other site 627192009716 dimerization interface [polypeptide binding]; other site 627192009717 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 627192009718 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 627192009719 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 627192009720 NAD binding site [chemical binding]; other site 627192009721 dimerization interface [polypeptide binding]; other site 627192009722 product binding site; other site 627192009723 substrate binding site [chemical binding]; other site 627192009724 zinc binding site [ion binding]; other site 627192009725 catalytic residues [active] 627192009726 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 627192009727 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 627192009728 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 627192009729 PEP-CTERM motif; Region: VPEP; pfam07589 627192009730 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 627192009731 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 627192009732 GDP-binding site [chemical binding]; other site 627192009733 ACT binding site; other site 627192009734 IMP binding site; other site 627192009735 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 627192009736 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192009737 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 627192009738 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 627192009739 Ligand Binding Site [chemical binding]; other site 627192009740 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 627192009741 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 627192009742 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 627192009743 NAD binding site [chemical binding]; other site 627192009744 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 627192009745 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 627192009746 active site 627192009747 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 627192009748 GMP synthase; Reviewed; Region: guaA; PRK00074 627192009749 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 627192009750 AMP/PPi binding site [chemical binding]; other site 627192009751 candidate oxyanion hole; other site 627192009752 catalytic triad [active] 627192009753 potential glutamine specificity residues [chemical binding]; other site 627192009754 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 627192009755 ATP Binding subdomain [chemical binding]; other site 627192009756 Ligand Binding sites [chemical binding]; other site 627192009757 Dimerization subdomain; other site 627192009758 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 627192009759 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 627192009760 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 627192009761 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 627192009762 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 627192009763 alphaNTD homodimer interface [polypeptide binding]; other site 627192009764 alphaNTD - beta interaction site [polypeptide binding]; other site 627192009765 alphaNTD - beta' interaction site [polypeptide binding]; other site 627192009766 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 627192009767 30S ribosomal protein S11; Validated; Region: PRK05309 627192009768 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 627192009769 30S ribosomal protein S13; Region: bact_S13; TIGR03631 627192009770 Protein of unknown function (DUF563); Region: DUF563; pfam04577 627192009771 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 627192009772 adenylate kinase; Reviewed; Region: adk; PRK00279 627192009773 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 627192009774 AMP-binding site [chemical binding]; other site 627192009775 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 627192009776 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 627192009777 SecY translocase; Region: SecY; pfam00344 627192009778 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 627192009779 Acyltransferase family; Region: Acyl_transf_3; pfam01757 627192009780 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 627192009781 23S rRNA binding site [nucleotide binding]; other site 627192009782 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 627192009783 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 627192009784 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 627192009785 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 627192009786 5S rRNA interface [nucleotide binding]; other site 627192009787 23S rRNA interface [nucleotide binding]; other site 627192009788 L5 interface [polypeptide binding]; other site 627192009789 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 627192009790 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 627192009791 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 627192009792 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 627192009793 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 627192009794 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 627192009795 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 627192009796 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 627192009797 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 627192009798 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 627192009799 RNA binding site [nucleotide binding]; other site 627192009800 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 627192009801 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 627192009802 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 627192009803 putative translocon interaction site; other site 627192009804 23S rRNA interface [nucleotide binding]; other site 627192009805 signal recognition particle (SRP54) interaction site; other site 627192009806 L23 interface [polypeptide binding]; other site 627192009807 trigger factor interaction site; other site 627192009808 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 627192009809 23S rRNA interface [nucleotide binding]; other site 627192009810 5S rRNA interface [nucleotide binding]; other site 627192009811 putative antibiotic binding site [chemical binding]; other site 627192009812 L25 interface [polypeptide binding]; other site 627192009813 L27 interface [polypeptide binding]; other site 627192009814 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 627192009815 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 627192009816 G-X-X-G motif; other site 627192009817 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 627192009818 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 627192009819 putative translocon binding site; other site 627192009820 protein-rRNA interface [nucleotide binding]; other site 627192009821 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 627192009822 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 627192009823 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 627192009824 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 627192009825 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 627192009826 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 627192009827 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 627192009828 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 627192009829 elongation factor Tu; Reviewed; Region: PRK00049 627192009830 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 627192009831 G1 box; other site 627192009832 GEF interaction site [polypeptide binding]; other site 627192009833 GTP/Mg2+ binding site [chemical binding]; other site 627192009834 Switch I region; other site 627192009835 G2 box; other site 627192009836 G3 box; other site 627192009837 Switch II region; other site 627192009838 G4 box; other site 627192009839 G5 box; other site 627192009840 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 627192009841 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 627192009842 Antibiotic Binding Site [chemical binding]; other site 627192009843 elongation factor G; Reviewed; Region: PRK00007 627192009844 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 627192009845 G1 box; other site 627192009846 putative GEF interaction site [polypeptide binding]; other site 627192009847 GTP/Mg2+ binding site [chemical binding]; other site 627192009848 Switch I region; other site 627192009849 G2 box; other site 627192009850 G3 box; other site 627192009851 Switch II region; other site 627192009852 G4 box; other site 627192009853 G5 box; other site 627192009854 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 627192009855 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 627192009856 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 627192009857 30S ribosomal protein S7; Validated; Region: PRK05302 627192009858 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 627192009859 S17 interaction site [polypeptide binding]; other site 627192009860 S8 interaction site; other site 627192009861 16S rRNA interaction site [nucleotide binding]; other site 627192009862 streptomycin interaction site [chemical binding]; other site 627192009863 23S rRNA interaction site [nucleotide binding]; other site 627192009864 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 627192009865 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 627192009866 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 627192009867 dimerization interface [polypeptide binding]; other site 627192009868 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 627192009869 ATP binding site [chemical binding]; other site 627192009870 Mg2+ binding site [ion binding]; other site 627192009871 G-X-G motif; other site 627192009872 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 627192009873 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 627192009874 S-adenosylmethionine binding site [chemical binding]; other site 627192009875 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 627192009876 ABC1 family; Region: ABC1; cl17513 627192009877 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 627192009878 Flavoprotein; Region: Flavoprotein; pfam02441 627192009879 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 627192009880 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 627192009881 trimer interface [polypeptide binding]; other site 627192009882 active site 627192009883 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 627192009884 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 627192009885 ATP binding site [chemical binding]; other site 627192009886 substrate interface [chemical binding]; other site 627192009887 Predicted membrane protein [Function unknown]; Region: COG3174 627192009888 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 627192009889 Pirin-related protein [General function prediction only]; Region: COG1741 627192009890 Pirin; Region: Pirin; pfam02678 627192009891 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 627192009892 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 627192009893 S-adenosylmethionine binding site [chemical binding]; other site 627192009894 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 627192009895 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 627192009896 homodimer interface [polypeptide binding]; other site 627192009897 substrate-cofactor binding pocket; other site 627192009898 catalytic residue [active] 627192009899 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 627192009900 Pirin-related protein [General function prediction only]; Region: COG1741 627192009901 Pirin; Region: Pirin; pfam02678 627192009902 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 627192009903 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 627192009904 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 627192009905 Transcriptional regulators [Transcription]; Region: MarR; COG1846 627192009906 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 627192009907 hypothetical protein; Provisional; Region: PRK06194 627192009908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192009909 NAD(P) binding site [chemical binding]; other site 627192009910 active site 627192009911 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 627192009912 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 627192009913 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 627192009914 hypothetical protein; Provisional; Region: PRK06194 627192009915 classical (c) SDRs; Region: SDR_c; cd05233 627192009916 NAD(P) binding site [chemical binding]; other site 627192009917 active site 627192009918 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 627192009919 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 627192009920 putative NAD(P) binding site [chemical binding]; other site 627192009921 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 627192009922 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 627192009923 Amidohydrolase; Region: Amidohydro_2; pfam04909 627192009924 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 627192009925 dinuclear metal binding motif [ion binding]; other site 627192009926 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 627192009927 Peptidase family M23; Region: Peptidase_M23; pfam01551 627192009928 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 627192009929 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 627192009930 putative catalytic site [active] 627192009931 putative phosphate binding site [ion binding]; other site 627192009932 active site 627192009933 metal binding site A [ion binding]; metal-binding site 627192009934 DNA binding site [nucleotide binding] 627192009935 putative AP binding site [nucleotide binding]; other site 627192009936 putative metal binding site B [ion binding]; other site 627192009937 Cupin domain; Region: Cupin_2; cl17218 627192009938 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 627192009939 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 627192009940 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 627192009941 Walker A motif; other site 627192009942 ATP binding site [chemical binding]; other site 627192009943 Walker B motif; other site 627192009944 arginine finger; other site 627192009945 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 627192009946 Predicted transcriptional regulators [Transcription]; Region: COG1733 627192009947 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 627192009948 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 627192009949 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 627192009950 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192009951 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192009952 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 627192009953 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 627192009954 dimer interface [polypeptide binding]; other site 627192009955 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 627192009956 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 627192009957 C-terminal domain interface [polypeptide binding]; other site 627192009958 GSH binding site (G-site) [chemical binding]; other site 627192009959 dimer interface [polypeptide binding]; other site 627192009960 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 627192009961 N-terminal domain interface [polypeptide binding]; other site 627192009962 dimer interface [polypeptide binding]; other site 627192009963 substrate binding pocket (H-site) [chemical binding]; other site 627192009964 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 627192009965 putative hydrophobic ligand binding site [chemical binding]; other site 627192009966 phage shock protein C; Region: phageshock_pspC; TIGR02978 627192009967 PspC domain; Region: PspC; pfam04024 627192009968 Phage shock protein B; Region: PspB; pfam06667 627192009969 phage shock protein A; Region: phageshock_pspA; TIGR02977 627192009970 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 627192009971 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 627192009972 Walker A motif; other site 627192009973 ATP binding site [chemical binding]; other site 627192009974 Walker B motif; other site 627192009975 arginine finger; other site 627192009976 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 627192009977 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 627192009978 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 627192009979 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 627192009980 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 627192009981 2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase (E2 component); Region: sucB; TIGR01347 627192009982 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 627192009983 E3 interaction surface; other site 627192009984 lipoyl attachment site [posttranslational modification]; other site 627192009985 e3 binding domain; Region: E3_binding; pfam02817 627192009986 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 627192009987 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 627192009988 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 627192009989 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192009990 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 627192009991 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 627192009992 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 627192009993 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 627192009994 active site 627192009995 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 627192009996 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 627192009997 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 627192009998 active site 627192009999 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192010000 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 627192010001 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 627192010002 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 627192010003 Transglycosylase; Region: Transgly; cl17702 627192010004 dihydroorotase; Validated; Region: PRK09060 627192010005 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 627192010006 active site 627192010007 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 627192010008 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 627192010009 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 627192010010 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 627192010011 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 627192010012 Peptidase family M48; Region: Peptidase_M48; cl12018 627192010013 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 627192010014 binding surface 627192010015 TPR motif; other site 627192010016 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 627192010017 TPR motif; other site 627192010018 binding surface 627192010019 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 627192010020 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 627192010021 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 627192010022 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 627192010023 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 627192010024 active site 627192010025 metal binding site [ion binding]; metal-binding site 627192010026 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 627192010027 Transglycosylase; Region: Transgly; pfam00912 627192010028 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 627192010029 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 627192010030 metal binding site [ion binding]; metal-binding site 627192010031 active site 627192010032 I-site; other site 627192010033 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 627192010034 peptide chain release factor 2; Provisional; Region: PRK07342 627192010035 This domain is found in peptide chain release factors; Region: PCRF; smart00937 627192010036 RF-1 domain; Region: RF-1; pfam00472 627192010037 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192010038 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 627192010039 S-adenosylmethionine binding site [chemical binding]; other site 627192010040 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 627192010041 Cupin-like domain; Region: Cupin_8; pfam13621 627192010042 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 627192010043 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 627192010044 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 627192010045 Predicted transcriptional regulator [Transcription]; Region: COG2932 627192010046 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 627192010047 Catalytic site [active] 627192010048 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 627192010049 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 627192010050 O-Antigen ligase; Region: Wzy_C; cl04850 627192010051 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 627192010052 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 627192010053 FMN binding site [chemical binding]; other site 627192010054 substrate binding site [chemical binding]; other site 627192010055 putative catalytic residue [active] 627192010056 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 627192010057 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 627192010058 colanic acid exporter; Provisional; Region: PRK10459 627192010059 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 627192010060 FOG: CBS domain [General function prediction only]; Region: COG0517 627192010061 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 627192010062 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 627192010063 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 627192010064 peptide chain release factor 1; Validated; Region: prfA; PRK00591 627192010065 This domain is found in peptide chain release factors; Region: PCRF; smart00937 627192010066 RF-1 domain; Region: RF-1; pfam00472 627192010067 histidyl-tRNA synthetase; Region: hisS; TIGR00442 627192010068 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 627192010069 dimer interface [polypeptide binding]; other site 627192010070 motif 1; other site 627192010071 active site 627192010072 motif 2; other site 627192010073 motif 3; other site 627192010074 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 627192010075 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192010076 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 627192010077 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 627192010078 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 627192010079 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 627192010080 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 627192010081 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 627192010082 dimer interface [polypeptide binding]; other site 627192010083 substrate binding site [chemical binding]; other site 627192010084 metal binding sites [ion binding]; metal-binding site 627192010085 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 627192010086 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 627192010087 Mg2+ binding site [ion binding]; other site 627192010088 G-X-G motif; other site 627192010089 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 627192010090 anchoring element; other site 627192010091 dimer interface [polypeptide binding]; other site 627192010092 ATP binding site [chemical binding]; other site 627192010093 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 627192010094 active site 627192010095 putative metal-binding site [ion binding]; other site 627192010096 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 627192010097 Dehydratase family; Region: ILVD_EDD; pfam00920 627192010098 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 627192010099 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 627192010100 active site 627192010101 catalytic tetrad [active] 627192010102 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192010103 SnoaL-like domain; Region: SnoaL_3; pfam13474 627192010104 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192010105 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192010106 SnoaL-like domain; Region: SnoaL_4; cl17707 627192010107 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 627192010108 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192010109 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 627192010110 N-terminal plug; other site 627192010111 ligand-binding site [chemical binding]; other site 627192010112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 627192010113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 627192010114 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 627192010115 dimerization interface [polypeptide binding]; other site 627192010116 5-oxoprolinase; Region: PLN02666 627192010117 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 627192010118 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 627192010119 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 627192010120 Protein of unknown function (DUF969); Region: DUF969; pfam06149 627192010121 Predicted membrane protein [Function unknown]; Region: COG3817 627192010122 Protein of unknown function (DUF979); Region: DUF979; pfam06166 627192010123 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 627192010124 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 627192010125 catalytic triad [active] 627192010126 putative active site [active] 627192010127 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 627192010128 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 627192010129 dimer interface [polypeptide binding]; other site 627192010130 ssDNA binding site [nucleotide binding]; other site 627192010131 tetramer (dimer of dimers) interface [polypeptide binding]; other site 627192010132 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 627192010133 G1 box; other site 627192010134 GTP/Mg2+ binding site [chemical binding]; other site 627192010135 Switch I region; other site 627192010136 G2 box; other site 627192010137 G3 box; other site 627192010138 Switch II region; other site 627192010139 G4 box; other site 627192010140 G5 box; other site 627192010141 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 627192010142 Nucleoside recognition; Region: Gate; pfam07670 627192010143 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 627192010144 Nucleoside recognition; Region: Gate; pfam07670 627192010145 FeoA domain; Region: FeoA; pfam04023 627192010146 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 627192010147 COQ9; Region: COQ9; pfam08511 627192010148 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 627192010149 homopentamer interface [polypeptide binding]; other site 627192010150 active site 627192010151 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 627192010152 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 627192010153 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 627192010154 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 627192010155 dimerization interface [polypeptide binding]; other site 627192010156 active site 627192010157 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 627192010158 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 627192010159 Lumazine binding domain; Region: Lum_binding; pfam00677 627192010160 Lumazine binding domain; Region: Lum_binding; pfam00677 627192010161 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 627192010162 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 627192010163 catalytic motif [active] 627192010164 Zn binding site [ion binding]; other site 627192010165 RibD C-terminal domain; Region: RibD_C; cl17279 627192010166 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 627192010167 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 627192010168 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192010169 active site 627192010170 HIGH motif; other site 627192010171 nucleotide binding site [chemical binding]; other site 627192010172 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 627192010173 active site 627192010174 KMSKS motif; other site 627192010175 NAD synthetase; Provisional; Region: PRK13981 627192010176 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 627192010177 multimer interface [polypeptide binding]; other site 627192010178 active site 627192010179 catalytic triad [active] 627192010180 protein interface 1 [polypeptide binding]; other site 627192010181 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 627192010182 homodimer interface [polypeptide binding]; other site 627192010183 NAD binding pocket [chemical binding]; other site 627192010184 ATP binding pocket [chemical binding]; other site 627192010185 Mg binding site [ion binding]; other site 627192010186 active-site loop [active] 627192010187 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 627192010188 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 627192010189 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 627192010190 active site 627192010191 aminodeoxychorismate synthase; Provisional; Region: PRK07508 627192010192 chorismate binding enzyme; Region: Chorismate_bind; cl10555 627192010193 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 627192010194 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 627192010195 substrate-cofactor binding pocket; other site 627192010196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192010197 aspartate aminotransferase; Provisional; Region: PRK05764 627192010198 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 627192010199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 627192010200 homodimer interface [polypeptide binding]; other site 627192010201 catalytic residue [active] 627192010202 methionine sulfoxide reductase A; Provisional; Region: PRK14054 627192010203 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 627192010204 colanic acid exporter; Provisional; Region: PRK10459 627192010205 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 627192010206 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 627192010207 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 627192010208 active site 627192010209 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 627192010210 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 627192010211 active site 627192010212 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 627192010213 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 627192010214 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 627192010215 metal ion-dependent adhesion site (MIDAS); other site 627192010216 PEP-CTERM motif; Region: VPEP; pfam07589 627192010217 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 627192010218 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 627192010219 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 627192010220 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 627192010221 putative chaperone; Provisional; Region: PRK11678 627192010222 nucleotide binding site [chemical binding]; other site 627192010223 putative NEF/HSP70 interaction site [polypeptide binding]; other site 627192010224 SBD interface [polypeptide binding]; other site 627192010225 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 627192010226 HSP70 interaction site [polypeptide binding]; other site 627192010227 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 627192010228 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_26; cd04685 627192010229 nudix motif; other site 627192010230 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 627192010231 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 627192010232 active site 627192010233 DNA binding site [nucleotide binding] 627192010234 Int/Topo IB signature motif; other site 627192010235 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 627192010236 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 627192010237 glutathione synthetase; Provisional; Region: PRK05246 627192010238 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 627192010239 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 627192010240 hypothetical protein; Reviewed; Region: PRK12497 627192010241 Predicted methyltransferases [General function prediction only]; Region: COG0313 627192010242 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 627192010243 putative SAM binding site [chemical binding]; other site 627192010244 putative homodimer interface [polypeptide binding]; other site 627192010245 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 627192010246 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 627192010247 putative ligand binding site [chemical binding]; other site 627192010248 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 627192010249 active site 627192010250 intersubunit interactions; other site 627192010251 catalytic residue [active] 627192010252 primosome assembly protein PriA; Validated; Region: PRK05580 627192010253 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 627192010254 ATP binding site [chemical binding]; other site 627192010255 putative Mg++ binding site [ion binding]; other site 627192010256 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 627192010257 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 627192010258 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 627192010259 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 627192010260 DNA binding site [nucleotide binding] 627192010261 active site 627192010262 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 627192010263 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 627192010264 dimer interface [polypeptide binding]; other site 627192010265 putative CheW interface [polypeptide binding]; other site 627192010266 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 627192010267 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 627192010268 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 627192010269 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 627192010270 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 627192010271 beta subunit interaction interface [polypeptide binding]; other site 627192010272 Walker A motif; other site 627192010273 ATP binding site [chemical binding]; other site 627192010274 Walker B motif; other site 627192010275 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 627192010276 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 627192010277 core domain interface [polypeptide binding]; other site 627192010278 delta subunit interface [polypeptide binding]; other site 627192010279 epsilon subunit interface [polypeptide binding]; other site 627192010280 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 627192010281 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 627192010282 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 627192010283 alpha subunit interaction interface [polypeptide binding]; other site 627192010284 Walker A motif; other site 627192010285 ATP binding site [chemical binding]; other site 627192010286 Walker B motif; other site 627192010287 inhibitor binding site; inhibition site 627192010288 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 627192010289 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 627192010290 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 627192010291 gamma subunit interface [polypeptide binding]; other site 627192010292 epsilon subunit interface [polypeptide binding]; other site 627192010293 LBP interface [polypeptide binding]; other site 627192010294 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 627192010295 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192010296 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 627192010297 S-adenosylmethionine binding site [chemical binding]; other site 627192010298 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 627192010299 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 627192010300 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 627192010301 Ligand binding site; other site 627192010302 Putative Catalytic site; other site 627192010303 DXD motif; other site 627192010304 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 627192010305 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 627192010306 ATP binding site [chemical binding]; other site 627192010307 Walker A motif; other site 627192010308 hexamer interface [polypeptide binding]; other site 627192010309 Walker B motif; other site 627192010310 Predicted methyltransferase [General function prediction only]; Region: COG4798 627192010311 Methyltransferase domain; Region: Methyltransf_23; pfam13489 627192010312 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 627192010313 active site 627192010314 aconitate hydratase; Validated; Region: PRK09277 627192010315 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 627192010316 substrate binding site [chemical binding]; other site 627192010317 ligand binding site [chemical binding]; other site 627192010318 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 627192010319 substrate binding site [chemical binding]; other site 627192010320 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 627192010321 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 627192010322 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 627192010323 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 627192010324 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 627192010325 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 627192010326 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 627192010327 active site 627192010328 metal binding site [ion binding]; metal-binding site 627192010329 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 627192010330 putative dimer interface [polypeptide binding]; other site 627192010331 putative tetramer interface [polypeptide binding]; other site 627192010332 putative active site [active] 627192010333 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 627192010334 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 627192010335 active site 627192010336 DNA polymerase IV; Validated; Region: PRK02406 627192010337 DNA binding site [nucleotide binding] 627192010338 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 627192010339 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 627192010340 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 627192010341 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 627192010342 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 627192010343 Cu(I) binding site [ion binding]; other site 627192010344 hypothetical protein; Provisional; Region: PRK05170 627192010345 Protein of unknown function DUF45; Region: DUF45; pfam01863 627192010346 Transglycosylase; Region: Transgly; pfam00912 627192010347 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 627192010348 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 627192010349 methionine sulfoxide reductase B; Provisional; Region: PRK00222 627192010350 SelR domain; Region: SelR; pfam01641 627192010351 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 627192010352 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 627192010353 heme-binding site [chemical binding]; other site 627192010354 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 627192010355 Lipopolysaccharide-assembly; Region: LptE; pfam04390 627192010356 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 627192010357 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 627192010358 HIGH motif; other site 627192010359 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 627192010360 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 627192010361 active site 627192010362 KMSKS motif; other site 627192010363 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 627192010364 tRNA binding surface [nucleotide binding]; other site 627192010365 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 627192010366 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 627192010367 thiamine phosphate binding site [chemical binding]; other site 627192010368 active site 627192010369 pyrophosphate binding site [ion binding]; other site 627192010370 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 627192010371 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 627192010372 catalytic residue [active] 627192010373 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 627192010374 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 627192010375 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 627192010376 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 627192010377 putative active site [active] 627192010378 putative metal binding site [ion binding]; other site 627192010379 hypothetical protein; Validated; Region: PRK01415 627192010380 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 627192010381 active site residue [active] 627192010382 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 627192010383 catalytic motif [active] 627192010384 Catalytic residue [active] 627192010385 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 627192010386 catalytic motif [active] 627192010387 Catalytic residue [active] 627192010388 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 627192010389 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 627192010390 ATP binding site [chemical binding]; other site 627192010391 putative Mg++ binding site [ion binding]; other site 627192010392 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 627192010393 nucleotide binding region [chemical binding]; other site 627192010394 ATP-binding site [chemical binding]; other site 627192010395 DEAD/H associated; Region: DEAD_assoc; pfam08494 627192010396 cell division protein ZipA; Provisional; Region: PRK01741 627192010397 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 627192010398 active site 627192010399 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 627192010400 substrate binding site [chemical binding]; other site 627192010401 metal binding site [ion binding]; metal-binding site 627192010402 ATPase MipZ; Region: MipZ; pfam09140 627192010403 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 627192010404 P-loop; other site 627192010405 Magnesium ion binding site [ion binding]; other site 627192010406 pantoate--beta-alanine ligase; Region: panC; TIGR00018 627192010407 Pantoate-beta-alanine ligase; Region: PanC; cd00560 627192010408 active site 627192010409 ATP-binding site [chemical binding]; other site 627192010410 pantoate-binding site; other site 627192010411 HXXH motif; other site 627192010412 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 627192010413 Sel1 repeat; Region: Sel1; cl02723 627192010414 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 627192010415 Protein of unknown function, DUF482; Region: DUF482; pfam04339 627192010416 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 627192010417 homotrimer interaction site [polypeptide binding]; other site 627192010418 putative active site [active] 627192010419 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 627192010420 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 627192010421 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 627192010422 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 627192010423 active site 627192010424 phosphorylation site [posttranslational modification] 627192010425 intermolecular recognition site; other site 627192010426 dimerization interface [polypeptide binding]; other site 627192010427 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 627192010428 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 627192010429 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 627192010430 dimerization interface [polypeptide binding]; other site 627192010431 DPS ferroxidase diiron center [ion binding]; other site 627192010432 ion pore; other site 627192010433 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 627192010434 DNA-binding site [nucleotide binding]; DNA binding site 627192010435 RNA-binding motif; other site 627192010436 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 627192010437 DNA-binding site [nucleotide binding]; DNA binding site 627192010438 RNA-binding motif; other site 627192010439 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 627192010440 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 627192010441 catalytic site [active] 627192010442 putative active site [active] 627192010443 putative substrate binding site [chemical binding]; other site 627192010444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 627192010445 OstA-like protein; Region: OstA; pfam03968 627192010446 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 627192010447 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 627192010448 Walker A/P-loop; other site 627192010449 ATP binding site [chemical binding]; other site 627192010450 Q-loop/lid; other site 627192010451 ABC transporter signature motif; other site 627192010452 Walker B; other site 627192010453 D-loop; other site 627192010454 H-loop/switch region; other site 627192010455 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 627192010456 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 627192010457 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 627192010458 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 627192010459 Transposase; Region: HTH_Tnp_IS630; pfam01710 627192010460 DDE superfamily endonuclease; Region: DDE_3; pfam13358 627192010461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 627192010462 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 627192010463 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 627192010464 active site 627192010465 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 627192010466 D-galactonate transporter; Region: 2A0114; TIGR00893 627192010467 putative substrate translocation pore; other site 627192010468 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 627192010469 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 627192010470 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 627192010471 N-terminal plug; other site 627192010472 ligand-binding site [chemical binding]; other site 627192010473 SnoaL-like domain; Region: SnoaL_4; pfam13577 627192010474 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 627192010475 classical (c) SDRs; Region: SDR_c; cd05233 627192010476 NAD(P) binding site [chemical binding]; other site 627192010477 active site 627192010478 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 627192010479 FAD binding domain; Region: FAD_binding_4; pfam01565 627192010480 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192010481 Transcriptional regulators [Transcription]; Region: PurR; COG1609 627192010482 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 627192010483 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 627192010484 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 627192010485 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 627192010486 NAD(P) binding site [chemical binding]; other site 627192010487 catalytic residues [active] 627192010488 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 627192010489 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; pfam03981 627192010490 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 627192010491 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 627192010492 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 627192010493 Malic enzyme, N-terminal domain; Region: malic; pfam00390 627192010494 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 627192010495 putative NAD(P) binding site [chemical binding]; other site 627192010496 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 627192010497 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 627192010498 MutS domain I; Region: MutS_I; pfam01624 627192010499 MutS domain II; Region: MutS_II; pfam05188 627192010500 MutS domain III; Region: MutS_III; pfam05192 627192010501 MutS domain V; Region: MutS_V; pfam00488 627192010502 Walker A/P-loop; other site 627192010503 ATP binding site [chemical binding]; other site 627192010504 Q-loop/lid; other site 627192010505 ABC transporter signature motif; other site 627192010506 Walker B; other site 627192010507 D-loop; other site 627192010508 H-loop/switch region; other site 627192010509 PII uridylyl-transferase; Provisional; Region: PRK05092 627192010510 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 627192010511 metal binding triad; other site 627192010512 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 627192010513 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 627192010514 Zn2+ binding site [ion binding]; other site 627192010515 Mg2+ binding site [ion binding]; other site 627192010516 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 627192010517 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 627192010518 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 627192010519 Ligand Binding Site [chemical binding]; other site 627192010520 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 627192010521 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 627192010522 23S rRNA binding site [nucleotide binding]; other site 627192010523 L21 binding site [polypeptide binding]; other site 627192010524 L13 binding site [polypeptide binding]; other site 627192010525 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 627192010526 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 627192010527 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 627192010528 dimer interface [polypeptide binding]; other site 627192010529 motif 1; other site 627192010530 active site 627192010531 motif 2; other site 627192010532 motif 3; other site 627192010533 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 627192010534 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 627192010535 putative tRNA-binding site [nucleotide binding]; other site 627192010536 B3/4 domain; Region: B3_4; pfam03483 627192010537 tRNA synthetase B5 domain; Region: B5; smart00874 627192010538 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 627192010539 dimer interface [polypeptide binding]; other site 627192010540 motif 1; other site 627192010541 motif 3; other site 627192010542 motif 2; other site 627192010543 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 627192010544 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 627192010545 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 627192010546 G1 box; other site 627192010547 putative GEF interaction site [polypeptide binding]; other site 627192010548 GTP/Mg2+ binding site [chemical binding]; other site 627192010549 Switch I region; other site 627192010550 G2 box; other site 627192010551 G3 box; other site 627192010552 Switch II region; other site 627192010553 G4 box; other site 627192010554 G5 box; other site 627192010555 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 627192010556 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 627192010557 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 627192010558 Peptidase family M23; Region: Peptidase_M23; pfam01551 627192010559 Family description; Region: DsbD_2; pfam13386 627192010560 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 627192010561 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 627192010562 FeS/SAM binding site; other site 627192010563 HemN C-terminal domain; Region: HemN_C; pfam06969 627192010564 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 627192010565 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 627192010566 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 627192010567 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 627192010568 metal-binding site [ion binding] 627192010569 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 627192010570 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 627192010571 FixH; Region: FixH; pfam05751 627192010572 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 627192010573 4Fe-4S binding domain; Region: Fer4_5; pfam12801 627192010574 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 627192010575 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 627192010576 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192010577 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 627192010578 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 627192010579 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 627192010580 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 627192010581 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 627192010582 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 627192010583 Low-spin heme binding site [chemical binding]; other site 627192010584 Putative water exit pathway; other site 627192010585 Binuclear center (active site) [active] 627192010586 Putative proton exit pathway; other site 627192010587 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 627192010588 PAS domain; Region: PAS_9; pfam13426 627192010589 putative active site [active] 627192010590 heme pocket [chemical binding]; other site 627192010591 PAS domain S-box; Region: sensory_box; TIGR00229 627192010592 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 627192010593 putative active site [active] 627192010594 heme pocket [chemical binding]; other site 627192010595 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 627192010596 dimer interface [polypeptide binding]; other site 627192010597 phosphorylation site [posttranslational modification] 627192010598 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 627192010599 ATP binding site [chemical binding]; other site 627192010600 Mg2+ binding site [ion binding]; other site 627192010601 G-X-G motif; other site 627192010602 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 627192010603 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 627192010604 active site 627192010605 phosphorylation site [posttranslational modification] 627192010606 intermolecular recognition site; other site 627192010607 dimerization interface [polypeptide binding]; other site 627192010608 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 627192010609 DNA binding residues [nucleotide binding] 627192010610 dimerization interface [polypeptide binding]; other site 627192010611 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 627192010612 Response regulator receiver domain; Region: Response_reg; pfam00072 627192010613 active site 627192010614 phosphorylation site [posttranslational modification] 627192010615 intermolecular recognition site; other site 627192010616 dimerization interface [polypeptide binding]; other site 627192010617 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 627192010618 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 627192010619 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 627192010620 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 627192010621 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 627192010622 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 627192010623 Zinc-finger domain; Region: zf-CHCC; pfam10276 627192010624 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 627192010625 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192010626 Walker A/P-loop; other site 627192010627 ATP binding site [chemical binding]; other site 627192010628 Q-loop/lid; other site 627192010629 ABC transporter signature motif; other site 627192010630 Walker B; other site 627192010631 D-loop; other site 627192010632 H-loop/switch region; other site 627192010633 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 627192010634 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 627192010635 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 627192010636 23S rRNA interface [nucleotide binding]; other site 627192010637 L3 interface [polypeptide binding]; other site 627192010638 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 627192010639 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 627192010640 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 627192010641 MerC mercury resistance protein; Region: MerC; pfam03203 627192010642 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 627192010643 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 627192010644 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 627192010645 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 627192010646 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192010647 catalytic residue [active] 627192010648 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 627192010649 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 627192010650 FeS assembly ATPase SufC; Region: sufC; TIGR01978 627192010651 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 627192010652 Walker A/P-loop; other site 627192010653 ATP binding site [chemical binding]; other site 627192010654 Q-loop/lid; other site 627192010655 ABC transporter signature motif; other site 627192010656 Walker B; other site 627192010657 D-loop; other site 627192010658 H-loop/switch region; other site 627192010659 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 627192010660 putative ABC transporter; Region: ycf24; CHL00085 627192010661 Predicted transcriptional regulator [Transcription]; Region: COG1959 627192010662 Transcriptional regulator; Region: Rrf2; cl17282 627192010663 Helix-turn-helix domain; Region: HTH_18; pfam12833 627192010664 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 627192010665 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 627192010666 quinone interaction residues [chemical binding]; other site 627192010667 active site 627192010668 catalytic residues [active] 627192010669 FMN binding site [chemical binding]; other site 627192010670 substrate binding site [chemical binding]; other site 627192010671 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 627192010672 substrate binding site [chemical binding]; other site 627192010673 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 627192010674 ATP binding site [chemical binding]; other site 627192010675 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 627192010676 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 627192010677 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 627192010678 NAD(P) binding site [chemical binding]; other site 627192010679 homotetramer interface [polypeptide binding]; other site 627192010680 homodimer interface [polypeptide binding]; other site 627192010681 active site 627192010682 ferrochelatase; Reviewed; Region: hemH; PRK00035 627192010683 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 627192010684 C-terminal domain interface [polypeptide binding]; other site 627192010685 active site 627192010686 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 627192010687 active site 627192010688 N-terminal domain interface [polypeptide binding]; other site 627192010689 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 627192010690 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192010691 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 627192010692 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192010693 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 627192010694 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 627192010695 Walker A motif; other site 627192010696 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 627192010697 HflK protein; Region: hflK; TIGR01933 627192010698 HflC protein; Region: hflC; TIGR01932 627192010699 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 627192010700 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 627192010701 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 627192010702 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 627192010703 protein binding site [polypeptide binding]; other site 627192010704 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 627192010705 protein binding site [polypeptide binding]; other site 627192010706 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 627192010707 AAA-like domain; Region: AAA_10; pfam12846 627192010708 Walker A motif; other site 627192010709 ATP binding site [chemical binding]; other site 627192010710 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 627192010711 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 627192010712 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 627192010713 active site residue [active] 627192010714 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 627192010715 active site residue [active] 627192010716 cystathionine beta-lyase; Provisional; Region: PRK09028 627192010717 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 627192010718 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192010719 catalytic residue [active] 627192010720 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 627192010721 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD; Region: Pro_isomerase; pfam00160 627192010722 active site 627192010723 beta-carotene hydroxylase; Region: PLN02601 627192010724 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 627192010725 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 627192010726 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 627192010727 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 627192010728 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 627192010729 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 627192010730 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 627192010731 Permease; Region: Permease; pfam02405 627192010732 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 627192010733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 627192010734 Walker A/P-loop; other site 627192010735 ATP binding site [chemical binding]; other site 627192010736 Q-loop/lid; other site 627192010737 ABC transporter signature motif; other site 627192010738 Walker B; other site 627192010739 D-loop; other site 627192010740 H-loop/switch region; other site 627192010741 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 627192010742 mce related protein; Region: MCE; pfam02470 627192010743 Protein of unknown function (DUF330); Region: DUF330; cl01135 627192010744 aminopeptidase N; Provisional; Region: pepN; PRK14015 627192010745 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 627192010746 active site 627192010747 Zn binding site [ion binding]; other site 627192010748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 627192010749 NAD(P) binding site [chemical binding]; other site 627192010750 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 627192010751 active site 627192010752 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 627192010753 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 627192010754 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 627192010755 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 627192010756 catalytic residue [active] 627192010757 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 627192010758 DDE superfamily endonuclease; Region: DDE_3; pfam13358 627192010759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 627192010760 Transposase; Region: HTH_Tnp_IS630; pfam01710 627192010761 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 627192010762 ParB-like nuclease domain; Region: ParBc; pfam02195 627192010763 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 627192010764 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 627192010765 P-loop; other site 627192010766 Magnesium ion binding site [ion binding]; other site 627192010767 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 627192010768 Magnesium ion binding site [ion binding]; other site 627192010769 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 627192010770 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 627192010771 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 627192010772 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 627192010773 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 627192010774 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 627192010775 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 627192010776 trmE is a tRNA modification GTPase; Region: trmE; cd04164 627192010777 G1 box; other site 627192010778 GTP/Mg2+ binding site [chemical binding]; other site 627192010779 Switch I region; other site 627192010780 G2 box; other site 627192010781 Switch II region; other site 627192010782 G3 box; other site 627192010783 G4 box; other site 627192010784 G5 box; other site 627192010785 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 627192010786 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 627192010787 transcription termination factor Rho; Provisional; Region: rho; PRK09376 627192010788 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 627192010789 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 627192010790 RNA binding site [nucleotide binding]; other site 627192010791 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 627192010792 multimer interface [polypeptide binding]; other site 627192010793 Walker A motif; other site 627192010794 ATP binding site [chemical binding]; other site 627192010795 Walker B motif; other site 627192010796 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 627192010797 putative FMN binding site [chemical binding]; other site 627192010798 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 627192010799 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 627192010800 substrate binding site [chemical binding]; other site 627192010801 active site